dwaggott

11	47368967	47368979	MYBPC3
11	47368970	47369035	MYBPC3
11	47369196	47369236	MYBPC3

dwaggott

##fileformat=VCFv4.0
##FILTER=<ID=PASS,Description="All filters passed">
##fileDate=20170403
##source=dbSNP
##dbSNP_BUILD_ID=150
##reference=GRCh37.p13
##phasing=partial
##variationPropertyDocumentationUrl=ftp://ftp.ncbi.nlm.nih.gov/snp/specs/dbSNP_BitField_latest.pdf	
##INFO=<ID=RS,Number=1,Type=Integer,Description="dbSNP ID (i.e. rs number)">
##INFO=<ID=RSPOS,Number=1,Type=Integer,Description="Chr position reported in dbSNP">

dwaggott

##fileformat=VCFv4.2
##FILTER=<ID=PASS,Description="All filters passed">
##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
##FILTER=<ID=RF,Description="Failed random forests filters (SNV cutoff 0.1, indels cutoff 0.2)">
##FILTER=<ID=AC0,Description="Allele Count is zero (i.e. no high-confidence genotype (GQ >= 20, DP >= 10, AB => 0.2 for het calls))">
##FILTER=<ID=InbreedingCoeff,Description="InbreedingCoeff < -0.3">
##FILTER=<ID=LCR,Description="In a low complexity region">
##FILTER=<ID=SEGDUP,Description="In a segmental duplication region">
##INFO=<ID=AC,Number=A,Type=Integer,Description="Allele count in genotypes, for each ALT allele, in the same order as listed">
##INFO=<ID=AF,Number=A,Type=Float,Description="Allele Frequency among genotypes, for each ALT allele, in the same order as listed">

dwaggott

##fileformat=VCFv4.2
##FILTER=<ID=PASS,Description="All filters passed">
##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
##FILTER=<ID=RF,Description="Failed random forests filters (SNV cutoff 0.1, indels cutoff 0.2)">
##FILTER=<ID=AC0,Description="Allele Count is zero (i.e. no high-confidence genotype (GQ >= 20, DP >= 10, AB => 0.2 for het calls))">
##FILTER=<ID=InbreedingCoeff,Description="InbreedingCoeff < -0.3">
##FILTER=<ID=LCR,Description="In a low complexity region">
##FILTER=<ID=SEGDUP,Description="In a segmental duplication region">
##INFO=<ID=AF,Number=A,Type=Float,Description="Allele Frequency among genotypes, for each ALT allele, in the same order as listed">
##INFO=<ID=AF_POPMAX,Number=A,Type=Float,Description="Maximum Allele Frequency across populations (excluding OTH)">

dwaggott

# The following table is formatted as tab separated values. 
#GeneName	GeneId	TranscriptId	BioType	variants_impact_HIGH	variants_impact_MODERATE	variants_impact_MODIFIER	variants_effect_downstream_gene_variant	variants_effect_missense_variant	variants_effect_structural_interaction_variant	variants_effect_upstream_gene_variant
CRYAB	ENSG00000109846	ENST00000227251	protein_coding	14	1	0	0	1	14	0
CRYAB	ENSG00000109846	ENST00000524660	protein_coding	0	0	1	0	0	0	1
CRYAB	ENSG00000109846	ENST00000525823	protein_coding	0	1	0	0	1	0	0
CRYAB	ENSG00000109846	ENST00000526167	protein_coding	0	1	0	0	1	0	0
CRYAB	ENSG00000109846	ENST00000526180	protein_coding	14	1	0	0	1	14	0
CRYAB	ENSG00000109846	ENST00000527899	protein_coding	0	1	0	0	1	0	0
CRYAB	ENSG00000109846	ENST00000527950	protein_coding	14	1	0	0	1	14	0
CRYAB	ENSG00000109846	ENST00000528628	protein_coding	0	1	0	0	1	0	0

dwaggott

##fileformat=VCFv4.2
##FILTER=<ID=PASS,Description="All filters passed">
##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
##FILTER=<ID=RF,Description="Failed random forests filters (SNV cutoff 0.1, indels cutoff 0.2)">
##FILTER=<ID=AC0,Description="Allele Count is zero (i.e. no high-confidence genotype (GQ >= 20, DP >= 10, AB => 0.2 for het calls))">
##FILTER=<ID=InbreedingCoeff,Description="InbreedingCoeff < -0.3">
##FILTER=<ID=LCR,Description="In a low complexity region">
##FILTER=<ID=SEGDUP,Description="In a segmental duplication region">
##INFO=<ID=AF,Number=A,Type=Float,Description="Allele Frequency among genotypes, for each ALT allele, in the same order as listed">
##INFO=<ID=AF_POPMAX,Number=A,Type=Float,Description="Maximum Allele Frequency across populations (excluding OTH)">

dwaggott

##fileformat=VCFv4.2
##FILTER=<ID=PASS,Description="All filters passed">
##ALT=<ID=NON_REF,Description="Represents any possible alternative allele at this location">
##FILTER=<ID=LowQual,Description="Low quality">
##FORMAT=<ID=AD,Number=R,Type=Integer,Description="Allelic depths for the ref and alt alleles in the order listed">
##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Approximate read depth (reads with MQ=255 or with bad mates are filtered)">
##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality">
##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
##FORMAT=<ID=MIN_DP,Number=1,Type=Integer,Description="Minimum DP observed within the GVCF block">
##FORMAT=<ID=PGT,Number=1,Type=String,Description="Physical phasing haplotype information, describing how the alternate alleles are phased in relation to one another">

dwaggott

 [1] "trying URL 'http://probability.ca/cran/src/contrib/openssl_0.9.4.tar.gz'"                                                                                                                                                                                                                
 [2] "Content type 'application/x-gzip' length 1165388 bytes (1.1 Mb)"                                                                                                                                                                                                                         
 [3] "opened URL"                                                                                                                                                                                                                                                                              
 [4] "=================================================="                                                                                                       

dwaggott

The downloaded source packages are in
	‘/state/partition2/local-scratch/dwaggott/9229044/Rtmp6egFtD/downloaded_packages’

dwaggott

;sldkfas;d