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3
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1
answer
142
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1
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How can I split WES FASTQ file into sub-files for each chromosome ?
fastq wes split chromosome written 3 days ago by 948077241 • 0
1
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0
answers
82
views
0
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putative mosaic mutations
mosaic de novo wes sequencing written 20 days ago by lait • 130
0
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0
answers
112
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0
answers
TCGA TMB: What exome size to use?
wes written 20 days ago by ngs_engineer • 0
1
vote
0
answers
91
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0
answers
Incorrect number of AD fields (2) at 1:878906 cannot merge
vcf wes bcftools written 25 days ago by jaybee • 10
1
vote
0
answers
1.1k
views
0
answers
What are the best tools/practices for CNV (structural variation) detection/analysis for Illumina family data?
sv wgs snp array wes cnv written 21 months ago by Irina Astrovskaya • 20 • updated 12 weeks ago by h.mon ♦ 24k
4
votes
1
answer
342
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1
answer
Appropriate bed files from library capture kit for computing on target coverage of WES bam files with Picard and CollectHsMetrics
picard on target coverage ngs wes bam files written 3 months ago by svlachavas • 560 • updated 3 months ago by finswimmer ♦ 11k
0
votes
0
answers
265
views
0
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Downstream analysis of VCF files obtained from VarScan2
vcf wes snpeff varscan2 somatic variations written 3 months ago by Raheleh • 50
1
vote
1
answer
774
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1
answer
Converting TCGA Bam files to fastq: Picard does not work!
wes sequencing written 19 months ago by jonessara770 • 130 • updated 4 months ago by rmh1995 • 0
0
votes
0
answers
209
views
0
answers
Qs about mutect2
gatk wes mutect2 written 4 months ago by walker • 10
0
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2
answers
177
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2
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Enrichment platforms for 1000GP exome data
data wes written 5 months ago by kuckunniwid • 20
3
votes
3
answers
527
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5 follow
3
answers
CNV calling from exome sequencing data with a low number of samples
exome wes copy-number variant cnv written 5 months ago by KumaraFM • 0 • updated 5 months ago by toralmanvar • 750
1
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2
answers
1.4k
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2
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SciClone on WES data
dnacopy varscan clonality wes sciclone written 22 months ago by mar.ark.parr • 30 • updated 5 months ago by aliz0611 • 0
15
votes
3
answers
1.6k
views
3
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Whole exome sequencing data, rare variants and QQ-plots
qq-plot wes whole exome sequencing written 2.8 years ago by felejohs • 70 • updated 5 months ago by zx8754 ♦ 6.7k
1
vote
1
answer
280
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1
answer
my bam file contains both single-end and paired-end. How can I convert bam to fastq so that fastq contains only paired-end reads?
wes written 6 months ago by jonessara770 • 130 • updated 6 months ago by Pierre Lindenbaum ♦ 117k
0
votes
0
answers
304
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0
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differences in covered regions in exome and whole genome sequencing
genome-sequencing wgs exome-sequencing wes written 8 months ago by miaowzai • 110 • updated 6 months ago by Biostar ♦♦ 20
0
votes
1
answer
260
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1
answer
Database of Mutations and the associated drugs
ngs wes written 7 months ago by Ron • 880 • updated 7 months ago by Kevin Blighe ♦ 39k
0
votes
0
answers
297
views
0
answers
CNV analysis from exome sequencing data
wes cnv written 7 months ago by mkamranazim • 0
1
vote
1
answer
239
views
1
answer
Haplotype sharing of mutation carriers
haplotype ngs wes snp written 7 months ago by Lio04 • 0 • updated 7 months ago by Kevin Blighe ♦ 39k
1
vote
0
answers
277
views
0
answers
interpretation of intronic variant detected by WES
wes written 7 months ago by jonessara770 • 130
0
votes
1
answer
200
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1
answer
How to remove Variants where the Ref and Alt in the reference genome are switched?
ngs wes refalt variantcalling written 8 months ago by O.ibra • 0 • updated 8 months ago by Pierre Lindenbaum ♦ 117k
2
votes
1
answer
828
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1
answer
Implementation of the COSMIC database for somatic variant annotation and filtering pipeline for WES cancer data
cosmic wes somatic variants variant annotation written 8 months ago by svlachavas • 560
2
votes
1
answer
449
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1
answer
How to take in consideration UMI in WES pipeline?
wes written 9 months ago by jonessara770 • 130 • updated 9 months ago by i.sudbery ♦ 4.0k
0
votes
0
answers
353
views
0
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Read simulators for Ion Torrent platform specific for WES
torrent simulation wes ion amliseq written 10 months ago by world_genesis • 0
6
votes
1
answer
477
views
1
answer
IBD calculation indicates cryptic relatedness of 1 Individual with all others within a sequencing cohort
relatedness wes plink ibd written 10 months ago by maegsul • 130 • updated 10 months ago by chrchang523 ♦ 4.8k
4
votes
1
answer
555
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1
answer
sample mixing when demultiplexing
human samples ngs wes demultiplex bam written 12 months ago by lait • 130
0
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0
answers
391
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0
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low coverage & BAF plots have three peaks
b-allele frequency low coverage wes human samples written 12 months ago by lait • 130
0
votes
1
answer
364
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1
answer
CNVkit segmetrics error
wes cnv germline written 12 months ago by SPDouglas • 0 • updated 12 months ago by Eric T. • 2.4k
0
votes
1
answer
478
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1
answer
Create a custom exome .genome for IGV
exome wes igv sequencing written 12 months ago by jgarces • 0 • updated 12 months ago by h.mon ♦ 24k
1
vote
2
answers
992
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2
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I need allele copy number information for running PyClone
wes whole-exome allele copy number written 19 months ago by a01039012387 • 10 • updated 13 months ago by nilesh.gardi2688 • 0
0
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0
answers
283
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0
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High CG>CA and CG>TG errors from bait bias WES
wes bias written 13 months ago by maduh17 • 10
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