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This figure shows bla blabla ....
Nils Gehlenborg ngehlenborg
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ngehlenborg
/ description.md
Last active
April 14, 2023 14:21
ngehlenborg
/ README.md
Created
May 10, 2022 21:34
Gosling Data Transformation Example: Filtering reads from an indexed BAM file based on MAPQ score
Created with help by @sehilyi
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| 1 9990 10541 NA_peak_1 659 . 14.0891 71.6944 65.9622 122 | |
| 1 17416 17558 NA_peak_2 57 . 3.78096 8.53598 5.75775 82 | |
| 1 28990 29391 NA_peak_3 110 . 5.55909 14.2035 11.0904 153 | |
| 1 136792 137016 NA_peak_4 43 . 3.89551 6.96678 4.30427 137 | |
| 1 137351 137493 NA_peak_5 31 . 3.52146 5.7373 3.17432 82 | |
| 1 180683 180998 NA_peak_6 148 . 5.32793 18.1263 14.81 236 | |
| 1 181424 181576 NA_peak_7 79 . 3.93461 10.8354 7.90908 84 | |
| 1 184442 184558 NA_peak_8 48 . 3.06671 7.58896 4.8773 62 | |
| 1 199522 200072 NA_peak_9 158 . 6.6282 19.2684 15.8945 374 | |
| 1 267946 268070 NA_peak_10 36 . 3.66636 6.25752 3.65471 61 |
ngehlenborg
/ README.md
Created
March 30, 2021 01:03
GOSLING: Single-cell epigenomic analyses implicate candidate causal variants at inherited risk loci for Alzheimer’s and Parkinson’s diseases
ngehlenborg
/ README.md
Created
March 29, 2021 22:57
GOSLING: Comparison of Micro-C and Hi-C for HFFc6 Cells
ngehlenborg
/ README.md
Created
March 4, 2021 02:59
For many file formats Gosling can parse the data directly from a web server without the need to request tiles from a HiGlass server. The list of "serverless" file formats can be found here:
https://github.com/gosling-lang/gosling-docs/blob/master/docs/Data.md#plain-datasets
ngehlenborg
/ COVID-Symptom-Tracker-Nature-Data.txt
Created
April 15, 2020 05:23
COVID Symptom Tracker April 7 (via https://www.nature.com/articles/d41586-020-00154-w)
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| A=140,E=11,E&F=28,C=57,C&F=179,C&F&A=259,C&F&A&E=69,C&F&E=54,S&F=10,S&F&C=22,S&F&C&A=26,S&F&C&A&D=18,S&F&C&A&E=17,S&F&C&A&E&D=23,S&F&C&E=11,S&F&C&E&D=8,S&F&C&D=7,C&S=1,S=5,F&D=43,F&D&A=64,F&D&A&C=41,F&D&A&C&E=50,F&D&A&E=17,F&D&C&E=17,F&D&E=12,F&C&D=31,C&D=7,D=12,A&F=281,E&F&A=46,F=198 |
ngehlenborg
/ fy2016-nih-funding.csv
Last active
March 16, 2017 12:51
Possible impact of proposed NIH budget on states.
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| State | Awards | Funding | Winner | Population | Non_Hispanic_White | Hispanic_or_Latino | Black | American_Indian_or_Alaskan_Native | Asian | Native_Hawaiian_or_Pacific_Islander | Mixed_race | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Alabama | 654 | 294964217 | Trump | 4822023 | 67 | 3.9 | 26.2 | 0.6 | 1.1 | 0.1 | 1.5 | |
| Alaska | 17 | 14594777 | Trump | 731449 | 64.1 | 5.5 | 3.3 | 14.8 | 5.4 | 1 | 7.3 | |
| Arizona | 382 | 163447535 | Trump | 6553255 | 57.8 | 29.6 | 4.1 | 4.6 | 2.8 | 0.2 | 3.4 | |
| Arkansas | 108 | 96652655 | Trump | 2949131 | 74.5 | 6.4 | 15.4 | 0.8 | 1.2 | 0.2 | 2 | |
| California | 7720 | 3686026589 | Clinton | 38041430 | 40.1 | 37.6 | 6.2 | 1 | 13 | 0.4 | 4.9 | |
| Colorado | 991 | 349974172 | Clinton | 5187582 | 70 | 20.7 | 4 | 1.1 | 2.8 | 0.1 | 3.4 | |
| Connecticut | 1179 | 510609681 | Clinton | 3590347 | 71.2 | 13.4 | 10.1 | 0.3 | 3.8 | 0 | 2.6 | |
| Delaware | 75 | 45371848 | Clinton | 917092 | 65.3 | 8.2 | 21.4 | 0.5 | 3.2 | 0 | 2.7 | |
| District Of Columbia | 361 | 214175791 | Clinton | 632323 | 34.8 | 9.1 | 50.7 | 0.3 | 3.5 | 0.1 | 2.9 |
ngehlenborg
/ ahca_visualization.R
Last active
March 17, 2017 00:25
Impact of AHCA on Number of Uninsured Persons
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| # Uninsured persons estimates for ACA | |
| # Centers for Disease Control and Prevention National Health Interview Survey | |
| # https://www.cdc.gov/nchs/data/nhis/earlyrelease/insur201702.pdf | |
| # (see Table II, page A3) | |
| # ACA data estimates through 2016: absolute uninsured | |
| aca_data <- approx(c(2010, 2011, 2012, 2013, 2014, 2015, 2016, 2017, 2018, 2020, 2026), | |
| c(48.6,46.3,45.5,44.8,36,28.6,28.2,28.2,28.2,28.2,28.2), n=17) | |
| # Uninsured persons estimates for AHCA from Congressional Budget Office |
ngehlenborg
/ COMMANDS.md
Last active
June 9, 2016 11:34
FILENAME=rao_et_al/HMEC/5kb_resolution_intrachromosomal/chr1/MAPQGE30/chr1_5kb.RAWobserved
FILENAME=rao_et_al/HMEC/5kb_resolution_intrachromosomal/chr1/MAPQGE30/chr1_5kb.RAWobserved
FILENAME=rao_et_al/HUVEC/5kb_resolution_intrachromosomal/chr1/MAPQGE30/chr1_5kb.RAWobservedNewerOlder