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simple l2fc scatter with brushing
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readme.csv
OTU Rank3 Rank2 Rank6 Rank5 Rank4 log2FoldChange
OTU.1 SubsectionIII Cyanobacteria unassigned Microcoleus FamilyI 0.273125576269475
OTU.10 Betaproteobacteria Proteobacteria Herbaspirillum Oxalobacteraceae Burkholderiales -0.7288353709745409
OTU.100 Rubrobacteria Actinobacteria Rubrobacter Rubrobacteriaceae Rubrobacterales -0.232079134527247
OTU.1001 SubsectionIII Cyanobacteria unassigned Microcoleus FamilyI 0.20796992257556896
OTU.101 Alphaproteobacteria Proteobacteria Rubellimicrobium Rhodobacteraceae Rhodobacterales -0.15980262963791902
OTU.102 Betaproteobacteria Proteobacteria Dechloromonas Rhodocyclaceae Rhodocyclales -3.24700423933967
OTU.103 Alphaproteobacteria Proteobacteria Rubellimicrobium Rhodobacteraceae Rhodobacterales -0.111393532733024
OTU.1064 Alphaproteobacteria Proteobacteria unassigned Rhodospirillaceae Rhodospirillales 0.8004701351003599
OTU.1075 SubsectionIII Cyanobacteria unassigned Microcoleus FamilyI -0.453080499311427
OTU.108 Clostridia Firmicutes uncultured Clostridiaceae Clostridiales 2.61245000983974
OTU.1080 Alphaproteobacteria Proteobacteria Microvirga Methylobacteriaceae Rhizobiales -0.5460452814584471
OTU.109 Thermoleophilia Actinobacteria Patulibacter Patulibacteraceae Solirubrobacterales -0.4857492454218739
OTU.11 Clostridia Firmicutes Clostridium Clostridiaceae Clostridiales 1.0324423912468101
OTU.110 Micrococcales Actinobacteria unassigned Arthrobacter Micrococcaceae 0.917491158887877
OTU.1106 SubsectionIII Cyanobacteria unassigned unassigned FamilyI 0.474998068742056
OTU.113 Betaproteobacteria Proteobacteria uncultured Rhodocyclaceae Rhodocyclales 1.02178871461346
OTU.116 Streptomycetales Actinobacteria unassigned Streptomyces Streptomycetaceae 2.4052602497656403
OTU.117 Sphingobacteriia Bacteroidetes Ferruginibacter Chitinophagaceae Sphingobacteriales 0.721590171654675
OTU.119 Thermomicrobia Chloroflexi unassigned unassigned JG30-KF-CM45 -1.38085647823208
OTU.12 Alphaproteobacteria Proteobacteria Microvirga Methylobacteriaceae Rhizobiales -0.223821181541802
OTU.122 SubsectionIII Cyanobacteria uncultured_bacterium Leptolyngbya FamilyI -1.33945154458632
OTU.123 Betaproteobacteria Proteobacteria Derxia Alcaligenaceae Burkholderiales 0.58586877404676
OTU.125 Gemmatimonadales Gemmatimonadetes uncultured_bacterium uncultured Gemmatimonadaceae 0.426311113363949
OTU.1260 Order_Incertae_Sedis Acidobacteria uncultured_bacterium Bryobacter Family_Incertae_Sedis -0.199050507560362
OTU.127 Gemmatimonadales Gemmatimonadetes uncultured_bacterium uncultured Gemmatimonadaceae -0.00772355977975034
OTU.129 Clostridia Firmicutes uncultured Clostridiaceae Clostridiales 0.8307428837042881
OTU.134 Betaproteobacteria Proteobacteria Paucimonas Oxalobacteraceae Burkholderiales 0.327643658817567
OTU.137 Alphaproteobacteria Proteobacteria Azospirillum Rhodospirillaceae Rhodospirillales 1.28923153831443
OTU.138 Clostridia Firmicutes Sporacetigenium Peptostreptococcaceae Clostridiales 0.8768181240990179
OTU.1396 Betaproteobacteria Proteobacteria Paucimonas Oxalobacteraceae Burkholderiales 0.21849123408281
OTU.1398 Candidatus_Chloracidobacterium Acidobacteria unassigned unassigned uncultured_bacterium 0.37270998461018606
OTU.14 Gammaproteobacteria Proteobacteria Escherichia-Shigella Enterobacteriaceae Enterobacteriales 3.2180079324661803
OTU.140 Bacilli Firmicutes Bacillus Bacillaceae Bacillales 1.98725073067058
OTU.1411 Alphaproteobacteria Proteobacteria Rubellimicrobium Rhodobacteraceae Rhodobacterales -0.757915346512621
OTU.143 Cytophagia Bacteroidetes Spirosoma Cytophagaceae Cytophagales 0.5539752531355611
OTU.144 Clostridia Firmicutes Lutispora Gracilibacteraceae Clostridiales -1.09050966511963
OTU.147 Alphaproteobacteria Proteobacteria Bosea Bradyrhizobiaceae Rhizobiales 0.431436503710161
OTU.15 Ktedonobacteria Chloroflexi unassigned uncultured_bacterium C0119 0.0948706849640109
OTU.151 Rubrobacteria Actinobacteria Rubrobacter Rubrobacteriaceae Rubrobacterales -0.0122658157617632
OTU.152 Acidimicrobiia Actinobacteria uncultured_bacterium TM214 Acidimicrobiales -1.00831144401172
OTU.1551 Betaproteobacteria Proteobacteria Undibacterium Oxalobacteraceae Burkholderiales -0.957356136648327
OTU.156 Armatimonadia Armatimonadetes unassigned uncultured_bacterium Armatimonadales -0.752209669768632
OTU.159 Clostridia Firmicutes uncultured Lachnospiraceae Clostridiales 1.02273268828465
OTU.164 Candidatus_Chloracidobacterium Acidobacteria unassigned unassigned uncultured_bacterium 0.0943179665610552
OTU.1641 Alphaproteobacteria Proteobacteria Microvirga Methylobacteriaceae Rhizobiales 0.63845555407798
OTU.165 Clostridia Firmicutes Tepidibacter Peptostreptococcaceae Clostridiales 1.23706162788599
OTU.1673 Clostridia Firmicutes Clostridium Clostridiaceae Clostridiales 2.61004575648759
OTU.168 SubsectionIII Cyanobacteria unassigned unassigned FamilyI 0.4898000935354339
OTU.1687 Betaproteobacteria Proteobacteria Paucimonas Oxalobacteraceae Burkholderiales 0.1553356679628
OTU.1694 Frankiales Actinobacteria unassigned Geodermatophilus Geodermatophilaceae 0.348045518904474
OTU.1698 Alphaproteobacteria Proteobacteria Microvirga Methylobacteriaceae Rhizobiales 0.440426622601671
OTU.17 Clostridia Firmicutes Clostridium Clostridiaceae Clostridiales 0.6819960117135191
OTU.170 Propionibacteriales Actinobacteria unassigned Aeromicrobium Nocardioidaceae -0.9190601983475749
OTU.171 Acidimicrobiia Actinobacteria uncultured_bacterium TM214 Acidimicrobiales 1.1388038545782
OTU.172 Alphaproteobacteria Proteobacteria Azospirillum Rhodospirillaceae Rhodospirillales -0.7506921647944409
OTU.1724 Betaproteobacteria Proteobacteria Paucimonas Oxalobacteraceae Burkholderiales -0.7868626678126371
OTU.174 Spartobacteria Verrucomicrobia Chthoniobacter Chthoniobacteraceae Chthoniobacterales -0.188895345279525
OTU.1747 Clostridia Firmicutes Clostridium Clostridiaceae Clostridiales 1.36387031793726
OTU.176 Betaproteobacteria Proteobacteria Delftia Comamonadaceae Burkholderiales 1.73187443526681
OTU.1764 Alphaproteobacteria Proteobacteria uncultured_bacterium Ellin6055 Sphingomonadales -0.870267407093388
OTU.177 Alphaproteobacteria Proteobacteria Roseococcus Acetobacteraceae Rhodospirillales 0.38407312847124303
OTU.1770 Alphaproteobacteria Proteobacteria Azospirillum Rhodospirillaceae Rhodospirillales 0.23966548347873398
OTU.178 Deltaproteobacteria Proteobacteria Polyangiaceae Sorangiineae Myxococcales -2.40623355607145
OTU.179 Pseudonocardiales Actinobacteria unassigned unassigned Pseudonocardiaceae -0.5061444117676279
OTU.1798 Frankiales Actinobacteria uncultured_bacterium Modestobacter Geodermatophilaceae 0.29534001734319704
OTU.181 Alphaproteobacteria Proteobacteria Craurococcus Acetobacteraceae Rhodospirillales -0.8828892728563009
OTU.182 Sphingobacteriia Bacteroidetes Flavisolibacter Chitinophagaceae Sphingobacteriales 0.723198879983463
OTU.1831 Armatimonadia Armatimonadetes unassigned unassigned Armatimonadales -0.7961764605916309
OTU.1833 Betaproteobacteria Proteobacteria Derxia Alcaligenaceae Burkholderiales -0.525509474091203
OTU.185 Propionibacteriales Actinobacteria uncultured_bacterium Marmoricola Nocardioidaceae -1.07538631329239
OTU.1860 Betaproteobacteria Proteobacteria unassigned Comamonadaceae Burkholderiales -0.286189437243774
OTU.190 uncultured_bacterium Armatimonadetes unassigned unassigned unassigned 0.8044607135893279
OTU.191 Clostridia Firmicutes Symbiobacterium Family_XVIII_Incertae_Sedis Clostridiales 1.3174364169444899
OTU.1923 Rubrobacteria Actinobacteria Rubrobacter Rubrobacteriaceae Rubrobacterales 0.0138555467272426
OTU.193 Holophagae Acidobacteria unassigned uncultured_Acidobacteria_bacterium iii1-8 0.692719066252418
OTU.194 Alphaproteobacteria Proteobacteria uncultured Caulobacteraceae Caulobacterales -0.199663582458805
OTU.195 Alphaproteobacteria Proteobacteria uncultured Acetobacteraceae Rhodospirillales -0.266639094499107
OTU.1957 Candidatus_Chloracidobacterium Acidobacteria unassigned unassigned uncultured_Acidobacteria_bacterium 0.478703211167235
OTU.196 Bacilli Firmicutes Paenibacillus Paenibacillaceae Bacillales 0.0191195734278926
OTU.198 SubsectionIII Cyanobacteria unassigned unassigned FamilyI -0.826086293839846
OTU.20 Sphingobacteriia Bacteroidetes Segetibacter Chitinophagaceae Sphingobacteriales 0.650910318003781
OTU.201 Clostridia Firmicutes Clostridium Clostridiaceae Clostridiales 1.4593466264423898
OTU.2015 Alphaproteobacteria Proteobacteria Azospirillum Rhodospirillaceae Rhodospirillales 0.523214842610966
OTU.202 AT425-EubC11_terrestrial_group Gemmatimonadetes unassigned unassigned uncultured_bacterium 0.27708889643846996
OTU.2029 Alphaproteobacteria Proteobacteria uncultured_endolithic_bacterium JG34-KF-361 Rhizobiales -0.309207404330953
OTU.2033 Betaproteobacteria Proteobacteria uncultured Comamonadaceae Burkholderiales -0.0491014478428569
OTU.204 Spartobacteria Verrucomicrobia Chthoniobacter Chthoniobacteraceae Chthoniobacterales -2.21563494527952
OTU.21 Candidatus_Chloracidobacterium Acidobacteria unassigned unassigned uncultured_bacterium 0.0584720025858566
OTU.212 Alphaproteobacteria Proteobacteria Sphingomonas Sphingomonadaceae Sphingomonadales 0.464138547363253
OTU.214 Micrococcales Actinobacteria unassigned Cellulomonas Cellulomonadaceae -0.11691984654916199
OTU.215 AT425-EubC11_terrestrial_group Gemmatimonadetes unassigned unassigned uncultured_bacterium 0.45990490191341
OTU.2175 Clostridia Firmicutes Clostridium Clostridiaceae Clostridiales 1.02909059954245
OTU.218 Candidatus_Chloracidobacterium Acidobacteria unassigned unassigned uncultured_bacterium 1.4842255479938897
OTU.227 Clostridia Firmicutes Cellulosilyticum Lachnospiraceae Clostridiales -0.5981347438823189
OTU.2292 Frankiales Actinobacteria unassigned Modestobacter Geodermatophilaceae 0.71466624193565
OTU.23 Alphaproteobacteria Proteobacteria unassigned unassigned Rhizobiales -0.232960348466875
OTU.231 Alphaproteobacteria Proteobacteria Sphingomonas Sphingomonadaceae Sphingomonadales 0.139361294924078
OTU.233 Cytophagia Bacteroidetes uncultured Cytophagaceae Cytophagales 0.918828313685462
OTU.238 Alphaproteobacteria Proteobacteria Sphingomonas Sphingomonadaceae Sphingomonadales -0.127771663218149
OTU.239 Alphaproteobacteria Proteobacteria Sphingomonas Sphingomonadaceae Sphingomonadales 0.0873223868738334
OTU.24 Rubrobacteria Actinobacteria Rubrobacter Rubrobacteriaceae Rubrobacterales 0.436021810978793
OTU.2404 Bacilli Firmicutes Incertae_Sedis Planococcaceae Bacillales 0.8772733011631758
OTU.243 Bacilli Firmicutes Bacillus Bacillaceae Bacillales 2.2231450044296603
OTU.2445 Betaproteobacteria Proteobacteria Herbaspirillum Oxalobacteraceae Burkholderiales 0.5170202240756939
OTU.2452 Alphaproteobacteria Proteobacteria Sphingomonas Sphingomonadaceae Sphingomonadales -0.8526149606796691
OTU.247 Alphaproteobacteria Proteobacteria Sphingomonas Sphingomonadaceae Sphingomonadales -1.1946944326149098
OTU.249 Clostridia Firmicutes uncultured Clostridiaceae Clostridiales 0.38088118591102793
OTU.250 Alphaproteobacteria Proteobacteria Sphingomonas Sphingomonadaceae Sphingomonadales 0.0508311030214174
OTU.2526 Alphaproteobacteria Proteobacteria Rubellimicrobium Rhodobacteraceae Rhodobacterales 0.463074407472524
OTU.2538 Alphaproteobacteria Proteobacteria Microvirga Methylobacteriaceae Rhizobiales -0.33530463100057695
OTU.255 AT425-EubC11_terrestrial_group Gemmatimonadetes unassigned unassigned uncultured_bacterium -1.9270855676213998
OTU.258 Thermoleophilia Actinobacteria uncultured_bacterium uncultured Gaiellales 0.7147515001384901
OTU.259 Clostridia Firmicutes uncultured Lachnospiraceae Clostridiales 1.39176062427901
OTU.263 Alphaproteobacteria Proteobacteria Azospirillum Rhodospirillaceae Rhodospirillales 1.85833817916099
OTU.2655 Planctomycetacia Planctomycetes unassigned Planctomycetaceae Planctomycetales -1.0742255886505798
OTU.27 Alphaproteobacteria Proteobacteria Rubellimicrobium Rhodobacteraceae Rhodobacterales 0.0726987971324522
OTU.271 Candidatus_Chloracidobacterium Acidobacteria unassigned unassigned uncultured_bacterium 0.4273722181416
OTU.273 Cytophagia Bacteroidetes Fibrella Cytophagaceae Cytophagales -0.24574410875310998
OTU.277 Gemmatimonadales Gemmatimonadetes uncultured_bacterium uncultured Gemmatimonadaceae -0.750275742028187
OTU.2771 Gammaproteobacteria Proteobacteria Stenotrophomonas Xanthomonadaceae Xanthomonadales 1.4009354082273302
OTU.278 Clostridia Firmicutes Symbiobacterium Family_XVIII_Incertae_Sedis Clostridiales 2.50542961886142
OTU.28 Thermomicrobia Chloroflexi unassigned unassigned JG30-KF-CM45 0.612229509761058
OTU.280 Alphaproteobacteria Proteobacteria unassigned unassigned Rhizobiales -0.29658380806209306
OTU.282 Corynebacteriales Actinobacteria unassigned Rhodococcus Nocardiaceae 1.0825065347652
OTU.2833 Rubrobacteria Actinobacteria Rubrobacter Rubrobacteriaceae Rubrobacterales -0.44070997508581
OTU.285 Frankiales Actinobacteria unassigned Geodermatophilus Geodermatophilaceae 0.0667459824315188
OTU.2857 Alphaproteobacteria Proteobacteria Sphingomonas Sphingomonadaceae Sphingomonadales -0.536712496524034
OTU.29 Betaproteobacteria Proteobacteria uncultured Comamonadaceae Burkholderiales -0.6274314686341089
OTU.290 Cytophagia Bacteroidetes uncultured Cytophagaceae Cytophagales 0.9834936944462509
OTU.3 Bacilli Firmicutes unassigned Bacillaceae Bacillales 1.1594799036911299
OTU.30 AKIW781 Chloroflexi unassigned unassigned unassigned -1.2789185528780902
OTU.300 SubsectionII Cyanobacteria uncultured_bacterium Chroococcidiopsis FamilyII -1.4096435534097902
OTU.303 Frankiales Actinobacteria uncultured_bacterium Modestobacter Geodermatophilaceae -0.7622013804307529
OTU.3049 SubsectionIII Cyanobacteria unassigned Microcoleus FamilyI -0.0262898701131294
OTU.306 Flavobacteria Bacteroidetes Flavobacterium Flavobacteriaceae Flavobacteriales -0.5157174942732929
OTU.308 Bacilli Firmicutes Tumebacillus Alicyclobacillaceae Bacillales -0.365711426842449
OTU.3097 SubsectionIII Cyanobacteria unassigned unassigned FamilyI 0.0159410911778563
OTU.31 uncultured_bacterium Armatimonadetes unassigned unassigned unassigned -0.5749968735831129
OTU.310 Sphingobacteriia Bacteroidetes Flavisolibacter Chitinophagaceae Sphingobacteriales -2.02940920363464
OTU.311 AKIW781 Chloroflexi unassigned unassigned uncultured_Chloroflexi_bacterium -0.926878068786256
OTU.3118 Alphaproteobacteria Proteobacteria Craurococcus Acetobacteraceae Rhodospirillales -0.356644672406111
OTU.316 Alphaproteobacteria Proteobacteria uncultured_bacterium JG34-KF-161 Sphingomonadales -0.586153777487027
OTU.3168 Rubrobacteria Actinobacteria Rubrobacter Rubrobacteriaceae Rubrobacterales 0.737158942705915
OTU.317 Alphaproteobacteria Proteobacteria unassigned unassigned Rhizobiales -0.30137367379766805
OTU.3209 Rubrobacteria Actinobacteria Rubrobacter Rubrobacteriaceae Rubrobacterales -1.0028599085743002
OTU.321 Gammaproteobacteria Proteobacteria Stenotrophomonas Xanthomonadaceae Xanthomonadales 3.27644485676445
OTU.326 Chlorobia Chlorobi uncultured_bacterium OPB56 Chlorobiales 0.8499783028597769
OTU.327 Clostridia Firmicutes Clostridium Clostridiaceae Clostridiales 1.95390353073878
OTU.328 Sphingobacteriia Bacteroidetes Flavisolibacter Chitinophagaceae Sphingobacteriales 0.862531014980462
OTU.33 SubsectionIII Cyanobacteria unassigned unassigned FamilyI -0.15397186845554997
OTU.330 Clostridia Firmicutes Clostridium Clostridiaceae Clostridiales 3.08861585982166
OTU.3329 Alphaproteobacteria Proteobacteria Rubellimicrobium Rhodobacteraceae Rhodobacterales 0.24884851346893602
OTU.3334 Alphaproteobacteria Proteobacteria Sphingomonas Sphingomonadaceae Sphingomonadales -0.17578005329003699
OTU.334 Kineosporiales Actinobacteria unassigned unassigned Kineosporiaceae -0.124869193173127
OTU.335 Alphaproteobacteria Proteobacteria Sphingomonas Sphingomonadaceae Sphingomonadales -1.03772997958959
OTU.336 Thermoleophilia Actinobacteria unassigned unassigned Solirubrobacterales 0.9120805735748051
OTU.3364 RB41 Acidobacteria unassigned unassigned uncultured_bacterium -0.7432891786153321
OTU.337 unassigned unassigned unassigned unassigned unassigned -1.01962752810133
OTU.34 uncultured_bacterium Armatimonadetes unassigned unassigned unassigned -0.45044154175653495
OTU.342 Gammaproteobacteria Proteobacteria unassigned Moraxellaceae Pseudomonadales 1.99348002952889
OTU.343 Propionibacteriales Actinobacteria unassigned Marmoricola Nocardioidaceae 0.43678018253396705
OTU.3439 Frankiales Actinobacteria unassigned Blastococcus Geodermatophilaceae -0.108322613299562
OTU.3454 Alphaproteobacteria Proteobacteria uncultured_endolithic_bacterium JG34-KF-361 Rhizobiales -0.944912490031673
OTU.348 Frankiales Actinobacteria unassigned uncultured_bacterium uncultured -0.0561270502788235
OTU.35 uncultured Cyanobacteria unassigned unassigned uncultured_bacterium -0.9908246750753922
OTU.3512 Frankiales Actinobacteria unassigned Geodermatophilus Geodermatophilaceae 0.0959684240709548
OTU.355 Alphaproteobacteria Proteobacteria Bosea Bradyrhizobiaceae Rhizobiales -0.8746168355341619
OTU.357 RB41 Acidobacteria unassigned unassigned uncultured_bacterium 1.1300599587587201
OTU.358 AKIW781 Chloroflexi unassigned unassigned uncultured_bacterium 0.5859032597203979
OTU.3636 Alphaproteobacteria Proteobacteria Sphingomonas Sphingomonadaceae Sphingomonadales 0.0459107877837019
OTU.367 Thermoleophilia Actinobacteria Solirubrobacter Solirubrobacteraceae Solirubrobacterales -0.350487373129088
OTU.3694 Alphaproteobacteria Proteobacteria Azospirillum Rhodospirillaceae Rhodospirillales 0.160414812063523
OTU.37 Clostridia Firmicutes Clostridium Clostridiaceae Clostridiales 1.1518080814434
OTU.370 Alphaproteobacteria Proteobacteria Afifella Rhodobiaceae Rhizobiales -0.448935310204375
OTU.3712 Clostridia Firmicutes Clostridium Clostridiaceae Clostridiales 1.2796434031588702
OTU.372 Verrucomicrobiae Verrucomicrobia uncultured Verrucomicrobiaceae Verrucomicrobiales -0.0928178018116085
OTU.3755 Alphaproteobacteria Proteobacteria Sphingomonas Sphingomonadaceae Sphingomonadales 0.500983802409275
OTU.38 Frankiales Actinobacteria unassigned Geodermatophilus Geodermatophilaceae 0.17913727899932802
OTU.3814 Alphaproteobacteria Proteobacteria Bosea Bradyrhizobiaceae Rhizobiales -0.662898403569163
OTU.388 Thermoleophilia Actinobacteria uncultured_microorganism 480-2 Solirubrobacterales 0.9833636284361729
OTU.39 Alphaproteobacteria Proteobacteria Craurococcus Acetobacteraceae Rhodospirillales 0.414578821921815
OTU.390 Alphaproteobacteria Proteobacteria Sphingobium Sphingomonadaceae Sphingomonadales -0.193348710532073
OTU.4 Alphaproteobacteria Proteobacteria unassigned JG34-KF-161 Sphingomonadales 0.32438582317796505
OTU.402 Phycisphaerae Planctomycetes unassigned uncultured_bacterium WD2101_soil_group -1.27251447184163
OTU.4037 Clostridia Firmicutes uncultured Clostridiaceae Clostridiales 2.12116815030846
OTU.4048 Gammaproteobacteria Proteobacteria Pantoea Enterobacteriaceae Enterobacteriales 1.4178241807628402
OTU.405 Alphaproteobacteria Proteobacteria Roseomonas Acetobacteraceae Rhodospirillales -0.0597984536160447
OTU.408 Alphaproteobacteria Proteobacteria Methylobacterium Methylobacteriaceae Rhizobiales -1.22112280836731
OTU.41 Deltaproteobacteria Proteobacteria uncultured Cystobacterineae Myxococcales 0.6352602617576739
OTU.4112 RB41 Acidobacteria unassigned unassigned uncultured_bacterium -0.356122083440099
OTU.4113 Betaproteobacteria Proteobacteria Massilia Oxalobacteraceae Burkholderiales -0.4700467369912171
OTU.4126 Clostridia Firmicutes unassigned Clostridiaceae Clostridiales 0.0397285697447295
OTU.4136 Clostridia Firmicutes Clostridium Clostridiaceae Clostridiales 0.0317551470844473
OTU.4143 Alphaproteobacteria Proteobacteria Rubellimicrobium Rhodobacteraceae Rhodobacterales 0.291397672346646
OTU.416 Deltaproteobacteria Proteobacteria Geobacter Geobacteraceae Desulfuromonadales 1.5921027286368001
OTU.4167 Clostridia Firmicutes uncultured Clostridiaceae Clostridiales 2.1514931233233403
OTU.4181 Alphaproteobacteria Proteobacteria Azospirillum Rhodospirillaceae Rhodospirillales -0.521326469489329
OTU.4193 Alphaproteobacteria Proteobacteria Rubellimicrobium Rhodobacteraceae Rhodobacterales 0.18404892313461496
OTU.42 Frankiales Actinobacteria unassigned Blastococcus Geodermatophilaceae 0.0168851233520083
OTU.420 Armatimonadia Armatimonadetes unassigned uncultured_bacterium Armatimonadales -0.601489094500087
OTU.422 Sphingobacteriia Bacteroidetes Flavisolibacter Chitinophagaceae Sphingobacteriales 0.267415689803138
OTU.4220 Betaproteobacteria Proteobacteria Ramlibacter Comamonadaceae Burkholderiales -0.34333115379312
OTU.427 Spartobacteria Verrucomicrobia unassigned unassigned unassigned 0.513428743433206
OTU.4322 Betaproteobacteria Proteobacteria unassigned Oxalobacteraceae Burkholderiales 0.250979882608993
OTU.442 Alphaproteobacteria Proteobacteria Sphingomonas Sphingomonadaceae Sphingomonadales 0.15784233385598
OTU.444 DA023 Acidobacteria unassigned unassigned uncultured_Acidobacteria_bacterium 1.1075558763524098
OTU.449 Frankiales Actinobacteria unassigned uncultured Sporichthyaceae 0.412640201737537
OTU.45 Alphaproteobacteria Proteobacteria Microvirga Methylobacteriaceae Rhizobiales 0.24699773043318302
OTU.456 Gitt-GS-136 Chloroflexi unassigned unassigned unassigned 1.06989485571678
OTU.465 Cytophagia Bacteroidetes Hymenobacter Cytophagaceae Cytophagales -0.751074168286514
OTU.47 Alphaproteobacteria Proteobacteria Sphingomonas Sphingomonadaceae Sphingomonadales 0.0950074808742764
OTU.471 Deinococci Deinococcus-Thermus Deinococcus Deinococcaceae Deinococcales -0.313363256404393
OTU.479 SubsectionII Cyanobacteria uncultured_bacterium Chroococcidiopsis FamilyII -0.731488885501762
OTU.49 Alphaproteobacteria Proteobacteria uncultured_endolithic_bacterium JG34-KF-361 Rhizobiales -0.235610850810333
OTU.490 Alphaproteobacteria Proteobacteria unassigned Sphingomonadaceae Sphingomonadales 0.762388632727506
OTU.496 Rubrobacteria Actinobacteria Rubrobacter Rubrobacteriaceae Rubrobacterales -0.133622688816485
OTU.497 Gammaproteobacteria Proteobacteria Lysobacter Xanthomonadaceae Xanthomonadales -0.10885656699968
OTU.50 Rubrobacteria Actinobacteria Rubrobacter Rubrobacteriaceae Rubrobacterales 0.120178774514248
OTU.51 Alphaproteobacteria Proteobacteria Devosia Hyphomicrobiaceae Rhizobiales -0.45079083760391603
OTU.513 Acidimicrobiia Actinobacteria CL500-29_marine_group Acidimicrobiaceae Acidimicrobiales 0.14429523969613597
OTU.52 SubsectionIII Cyanobacteria uncultured_cyanobacterium Crinalium FamilyI 0.151830429304181
OTU.529 Betaproteobacteria Proteobacteria Limnobacter Burkholderiaceae Burkholderiales 0.11095080972369198
OTU.53 Frankiales Actinobacteria unassigned Geodermatophilus Geodermatophilaceae -0.0242498906599648
OTU.535 vadinHA49 Planctomycetes unassigned unassigned unassigned 0.433225671595589
OTU.54 Gammaproteobacteria Proteobacteria Escherichia-Shigella Enterobacteriaceae Enterobacteriales 3.15483696234873
OTU.55 Candidatus_Chloracidobacterium Acidobacteria unassigned unassigned unassigned 1.57917802424808
OTU.562 SubsectionIII Cyanobacteria unassigned Microcoleus FamilyI -0.0660100414222201
OTU.564 Alphaproteobacteria Proteobacteria Craurococcus Acetobacteraceae Rhodospirillales -0.610903663529388
OTU.57 Clostridia Firmicutes uncultured Clostridiaceae Clostridiales 1.38075796705778
OTU.575 Clostridia Firmicutes Lutispora Gracilibacteraceae Clostridiales 1.83997007761102
OTU.580 Thermoleophilia Actinobacteria uncultured_actinobacterium 0319-6M6 Solirubrobacterales -0.321609438437719
OTU.583 Gemmatimonadales Gemmatimonadetes unassigned uncultured Gemmatimonadaceae -0.695678058375953
OTU.586 Betaproteobacteria Proteobacteria uncultured Comamonadaceae Burkholderiales 2.5807595627108397
OTU.6 SubsectionIII Cyanobacteria unassigned unassigned FamilyI -2.2929682617404397
OTU.60 Spartobacteria Verrucomicrobia Chthoniobacter Chthoniobacteraceae Chthoniobacterales -0.243405174419105
OTU.606 Planctomycetacia Planctomycetes uncultured Planctomycetaceae Planctomycetales 0.354121403321929
OTU.61 Clostridia Firmicutes Clostridium Clostridiaceae Clostridiales 1.61162760306315
OTU.618 Clostridia Firmicutes uncultured Clostridiaceae Clostridiales 0.16918098103540802
OTU.62 Micromonosporales Actinobacteria unassigned Actinoplanes Micromonosporaceae 0.45874219397
OTU.628 Alphaproteobacteria Proteobacteria Methylobacterium Methylobacteriaceae Rhizobiales 1.3878655676336598
OTU.63 Alphaproteobacteria Proteobacteria Rubellimicrobium Rhodobacteraceae Rhodobacterales 0.0772519638400044
OTU.639 Clostridia Firmicutes Symbiobacterium Family_XVIII_Incertae_Sedis Clostridiales -1.24106461344425
OTU.640 Betaproteobacteria Proteobacteria Massilia Oxalobacteraceae Burkholderiales -1.10037141215074
OTU.643 Clostridia Firmicutes Clostridium Clostridiaceae Clostridiales 1.7732617683681202
OTU.658 Clostridia Firmicutes Incertae_Sedis Ruminococcaceae Clostridiales 1.1382871535486498
OTU.66 SubsectionIII Cyanobacteria unassigned Phormidium FamilyI -0.27478723391313997
OTU.665 Alphaproteobacteria Proteobacteria Sphingomonas Sphingomonadaceae Sphingomonadales 0.629829706824417
OTU.67 Order_Incertae_Sedis Acidobacteria uncultured_bacterium Bryobacter Family_Incertae_Sedis 0.38413902391294
OTU.7 SubsectionIII Cyanobacteria unassigned unassigned FamilyI -1.14832752973395
OTU.703 Betaproteobacteria Proteobacteria unassigned Oxalobacteraceae Burkholderiales -0.46132840041198103
OTU.713 Alphaproteobacteria Proteobacteria unassigned Sphingomonadaceae Sphingomonadales -0.694275250075324
OTU.72 uncultured_bacterium Armatimonadetes unassigned unassigned unassigned -0.283986642980653
OTU.73 Rubrobacteria Actinobacteria Rubrobacter Rubrobacteriaceae Rubrobacterales 0.493823576358163
OTU.730 Propionibacteriales Actinobacteria unassigned Nocardioides Nocardioidaceae -0.8903648124782071
OTU.75 Clostridia Firmicutes Clostridium Clostridiaceae Clostridiales 1.2301063739178602
OTU.77 Gemmatimonadales Gemmatimonadetes uncultured_bacterium uncultured Gemmatimonadaceae -0.37007210405744106
OTU.772 Sphingobacteriia Bacteroidetes Pedobacter Sphingobacteriaceae Sphingobacteriales 0.544804473310597
OTU.78 Candidatus_Chloracidobacterium Acidobacteria unassigned unassigned uncultured_Acidobacteria_bacterium 1.18451345176905
OTU.8 unassigned unassigned unassigned unassigned unassigned 0.38633646993567494
OTU.80 Betaproteobacteria Proteobacteria unassigned Oxalobacteraceae Burkholderiales -0.9393932014679609
OTU.801 Sphingobacteriia Bacteroidetes Flavisolibacter Chitinophagaceae Sphingobacteriales 1.47808182440761
OTU.81 Alphaproteobacteria Proteobacteria unassigned Bradyrhizobiaceae Rhizobiales 1.3782461782238302
OTU.831 Pseudonocardiales Actinobacteria unassigned Actinomycetospora Pseudonocardiaceae 0.127645604188966
OTU.85 Frankiales Actinobacteria unassigned uncultured_actinobacterium uncultured -0.161521527204604
OTU.858 Micrococcales Actinobacteria unassigned unassigned Intrasporangiaceae 0.12003988529241001
OTU.88 Clostridia Firmicutes Symbiobacterium Family_XVIII_Incertae_Sedis Clostridiales 2.05356950402764
OTU.888 Thermoleophilia Actinobacteria Solirubrobacter Solirubrobacteraceae Solirubrobacterales 0.685712445718243
OTU.9 Alphaproteobacteria Proteobacteria Azospirillum Rhodospirillaceae Rhodospirillales 0.557754235662693
OTU.90 Alphaproteobacteria Proteobacteria Methylobacterium Methylobacteriaceae Rhizobiales -0.7045804716799009
OTU.91 Clostridia Firmicutes Clostridium Clostridiaceae Clostridiales 1.36296201435869
OTU.916 Thermoleophilia Actinobacteria Solirubrobacter Solirubrobacteraceae Solirubrobacterales -1.190753520253
OTU.938 Betaproteobacteria Proteobacteria Azoarcus Rhodocyclaceae Rhodocyclales 1.6524035914913202
OTU.943 Sphingobacteriia Bacteroidetes Flavisolibacter Chitinophagaceae Sphingobacteriales -0.390383949508764
OTU.95 Bacilli Firmicutes Sporosarcina Planococcaceae Bacillales 0.533556003283699
OTU.96 Alphaproteobacteria Proteobacteria Methylobacterium Methylobacteriaceae Rhizobiales -0.0907906541087509
OTU.97 Thermoleophilia Actinobacteria unassigned unassigned Solirubrobacterales 1.3777292372918999
OTU.987 Alphaproteobacteria Proteobacteria unassigned Methylobacteriaceae Rhizobiales 0.0876059011162944
OTU.99 Clostridia Firmicutes Symbiobacterium Family_XVIII_Incertae_Sedis Clostridiales 0.41108154481997206
OTU.999 Betaproteobacteria Proteobacteria unassigned Oxalobacteraceae Burkholderiales 1.3918010221489798
Raw
README.md

This is another example of brushing with a D3.js scatter plot. Drag a rectangle to highlight points.

Raw
index.html
<!DOCTYPE html>
<html lang="en">
<head>
<meta charset="UTF-8">
<style>
.axis path {
stroke: black;
shape-rendering: crispEdges;
stroke-width: 2.5;
}
.axis line {
shape-rendering: crispEdges;
stroke: lightgrey;
}
.axis text {
font-size: 22px;
font-family: sans-serif;
}
.point {
fill: black;
fill-opacity: 0.25;
stroke: black;
stroke-opacity: 1.0;
}
.point.unselected {
fill: gray;
stroke: gray;
fill-opacity: 0.10;
stroke-opacity: 0.55;
}
.point.selected {
fill: red;
stroke: red;
fill-opacity: 1.00;
stroke-opacity: 1.00;
}
.brush {
stroke: black;
fill-opacity: 0.10;
}
</style>
<svg class="chart"></svg>
</head>
<body>
<script src="http://d3js.org/d3.v3.min.js"></script>
<script src="scatter.js"></script>
</body>
</html>
Raw
scatter.coffee
margin = {top: 50, bottom : 225, left : 75, right : 50}
width = 700 - margin.left - margin.right
height = 625 - margin.top - margin.bottom
chart = d3.select(".chart")
.attr "width", width + margin.left + margin.right
.attr "height", height + margin.top + margin.bottom
.append "g"
.attr "transform", "translate(" + margin.left + "," + margin.top + ")"
y = d3.scale.linear()
.range [height, 0]
yAxis = d3.svg.axis()
.scale y
.orient "left"
.tickSize -width, 0, 0
x = d3.scale.ordinal()
xAxis = d3.svg.axis()
.scale x
.orient "bottom"
.tickSize -height, 0, 0
type = (d) ->
d.log2FoldChange = +d.log2FoldChange
d
d3.csv("readme.csv", type, (data) ->
domainValues = d3.set data.map (d) -> d.Rank2
x.rangeRoundPoints [0, width], 1.5
.domain(domainValues.values())
pad = 0.25
y.domain [d3.min(data, (d) -> d.log2FoldChange) - 0.5,
d3.max(data, (d) -> d.log2FoldChange) + 0.5]
chart
.append "g"
.attr "class", "x axis"
.attr "transform", () -> "translate(0," + height + ")"
.call xAxis
.selectAll "text"
.style "text-anchor", "end"
.style "font-style", "italic"
.attr "dx", "-1.0em"
.attr "dy", "0.5em"
.attr "x", 9
.attr "transform", "rotate(-60)"
sign = () -> if Math.random() < 0.5 then -1 else 1
jitter = () -> sign() * Math.random() * 7.5
ylabel = chart
.append "g"
.attr "class", "y axis"
.call yAxis
ylabel.append("text")
.attr "text-anchor", "middle"
.attr "x", -height / 2
.attr "y", -margin.left / 3
.attr "transform", "rotate(-90)"
.html "log&#8322; FoldChange"
points = chart.selectAll ".points"
.data data
.enter().append "circle"
.attr "class", "point"
.attr "cx", (d) -> x(d.Rank2) + jitter()
.attr "cy", (d) -> y(d.log2FoldChange)
.attr "r", 4
line = chart
.append "line"
.attr "x1", 0
.attr "x2", width
.attr "y1", y(0)
.attr "y2", y(0)
.attr "stroke", "blue"
.style "stroke-width", 4
brushmove = () ->
e = brush.extent();
chart
.selectAll ".point"
.classed "unselected", (d) ->
e[0][0] > x(d.Rank2) \
or x(d.Rank2) > e[1][0] \
or e[0][1] > d.log2FoldChange \
or d.log2FoldChange > e[1][1]
chart
.selectAll ".point"
.classed "selected", (d) ->
e[0][0] < x(d.Rank2) \
and x(d.Rank2) < e[1][0] \
and e[0][1] < d.log2FoldChange \
and d.log2FoldChange < e[1][1]
brushend = () ->
chart
.selectAll ".unselected"
.classed "unselected", false if brush.empty()
brush = d3.svg.brush()
.x x
.y y
.on "brush", brushmove
.on "brushend", brushend
chart
.append "g"
.attr "class", "brush"
.call brush
)
Raw
scatter.js
// Generated by CoffeeScript 1.8.0
var chart, height, margin, type, width, x, xAxis, y, yAxis;
margin = {
top: 50,
bottom: 225,
left: 75,
right: 50
};
width = 700 - margin.left - margin.right;
height = 625 - margin.top - margin.bottom;
chart = d3.select(".chart").attr("width", width + margin.left + margin.right).attr("height", height + margin.top + margin.bottom).append("g").attr("transform", "translate(" + margin.left + "," + margin.top + ")");
y = d3.scale.linear().range([height, 0]);
yAxis = d3.svg.axis().scale(y).orient("left").tickSize(-width, 0, 0);
x = d3.scale.ordinal();
xAxis = d3.svg.axis().scale(x).orient("bottom").tickSize(-height, 0, 0);
type = function(d) {
d.log2FoldChange = +d.log2FoldChange;
return d;
};
d3.csv("readme.csv", type, function(data) {
var brush, brushend, brushmove, domainValues, jitter, line, pad, points, sign, ylabel;
domainValues = d3.set(data.map(function(d) {
return d.Rank2;
}));
x.rangeRoundPoints([0, width], 1.5).domain(domainValues.values());
pad = 0.25;
y.domain([
d3.min(data, function(d) {
return d.log2FoldChange;
}) - 0.5, d3.max(data, function(d) {
return d.log2FoldChange;
}) + 0.5
]);
chart.append("g").attr("class", "x axis").attr("transform", function() {
return "translate(0," + height + ")";
}).call(xAxis).selectAll("text").style("text-anchor", "end").style("font-style", "italic").attr("dx", "-1.0em").attr("dy", "0.5em").attr("x", 9).attr("transform", "rotate(-60)");
sign = function() {
if (Math.random() < 0.5) {
return -1;
} else {
return 1;
}
};
jitter = function() {
return sign() * Math.random() * 7.5;
};
ylabel = chart.append("g").attr("class", "y axis").call(yAxis);
ylabel.append("text").attr("text-anchor", "middle").attr("x", -height / 2).attr("y", -margin.left / 3).attr("transform", "rotate(-90)").html("log&#8322; FoldChange");
points = chart.selectAll(".points").data(data).enter().append("circle").attr("class", "point").attr("cx", function(d) {
return x(d.Rank2) + jitter();
}).attr("cy", function(d) {
return y(d.log2FoldChange);
}).attr("r", 4);
line = chart.append("line").attr("x1", 0).attr("x2", width).attr("y1", y(0)).attr("y2", y(0)).attr("stroke", "blue").style("stroke-width", 4);
brushmove = function() {
var e;
e = brush.extent();
chart.selectAll(".point").classed("unselected", function(d) {
return e[0][0] > x(d.Rank2) || x(d.Rank2) > e[1][0] || e[0][1] > d.log2FoldChange || d.log2FoldChange > e[1][1];
});
return chart.selectAll(".point").classed("selected", function(d) {
return e[0][0] < x(d.Rank2) && x(d.Rank2) < e[1][0] && e[0][1] < d.log2FoldChange && d.log2FoldChange < e[1][1];
});
};
brushend = function() {
if (brush.empty()) {
return chart.selectAll(".unselected").classed("unselected", false);
}
};
brush = d3.svg.brush().x(x).y(y).on("brush", brushmove).on("brushend", brushend);
return chart.append("g").attr("class", "brush").call(brush);
});
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