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Showing : WES • reset
0
Votes
1
Reply
375
Views
TCGA TMB: What exome size to use?
WES
16 months ago
ngs_engineer • 0 • updated 13 months ago
bastien.nguyen • 0
3
Votes
13
Replies
251
Views
VarScan warning and exit after Invalid format for pileup at line 1
WES software error variant calling
14 months ago
n.tear • 0 • updated 13 months ago
Biostar 20
0
Votes
2
Replies
1.1k
Views
converting varscan2 output to sequenza
exome WES mutation SNP
2.9 years ago
a01039012387 • 10 • updated 13 months ago
brunobsouzaa • 10
2
Votes
3
Replies
179
Views
EXCAVATOR shows 1 deletion which is not TRUE in IGV
excavator igv wes exome cnv
13 months ago
lait • 130
2
Votes
4
Replies
184
Views
bionano hybrid scaffold
WES bionano optical mapping illumina
14 months ago
lait • 130 • updated 14 months ago
WouterDeCoster 39k
2
Votes
1
Reply
201
Views
Mutect2 "somatic" variants with resistant tissue culture lines
mutect2 wes variants genotyping GATK
15 months ago
shawn.w.foley • 670 • updated 14 months ago
Biostar 20
2
Votes
2
Replies
311
Views
CNVkit for somatic copy number detection
cnv cnvkit exome WES
14 months ago
stephaniem • 0
0
Votes
0
Replies
103
Views
Tools to access variation of ploidy at certain genomic loci using WES
WES Ploidy Endomitosis
14 months ago
Rahul Sharma • 580
0
Votes
2
Replies
161
Views
Can CVNkit call CNV correctly at HLA genes region?
CNVKIT wes HLA
14 months ago
MatthewP • 110 • updated 14 months ago
linouhao • 0
3
Votes
2
Replies
169
Views
Post-filtering WES for mutation calling
mutect2 wxs wes
14 months ago
graeme.thorn • 40
0
Votes
0
Replies
163
Views
How can I check my title of reads added by BWA mem -R?
WES BWA
14 months ago
Laven9 • 0
3
Votes
4
Replies
566
Views
Downstream analysis of VCF files obtained from VarScan2
WES VCF Somatic variations VarScan2 SnpEff
19 months ago
Raheleh • 70 • updated 15 months ago
bari.ballew • 90
8
Votes
4
Replies
295
Views
tool to detect large deletions
deletions IGV wes
15 months ago
lait • 130 • updated 15 months ago
bari.ballew • 90
0
Votes
1
Reply
1.3k
Views
Annovar - Mouse Exome Sequencing
annovar wes whole-exome sequencing mouse
3.1 years ago
cbatist • 0 • updated 15 months ago
Kevin Blighe 43k
6
Votes
1
Reply
1.6k
Views
Gold Standard for Human cancer exome sequencing
WES Somatic MuTect VarScan Cancer
3.7 years ago
Jerome Lin • 20 • updated 15 months ago
Biostar 20
7
Votes
4
Replies
194
Views
Can you use germline variation calling on a normal embryonic stem cell line?
SNP WES embryonic cell germline variation GATK
15 months ago
maria2019 • 30 • updated 15 months ago
Emily_Ensembl 18k
0
Votes
6
Replies
213
Views
why does qualimap2 shows different results for number of mismatches for bowtie2 and BWAMEM?
WES qualimap bowtie2 bwamem
15 months ago
maria2019 • 30 • updated 15 months ago
h.mon 25k
0
Votes
1
Reply
155
Views
Should I use the same reference indexing command of bwa for WGS and WES analysis?
bwa mem indexing WGS WES
15 months ago
maria2019 • 30 • updated 15 months ago
finswimmer 11k
0
Votes
1
Reply
172
Views
How many SNPs I should expect to see in a normal human embryonic stem cell (hESC) with WES analysis?
SNP hESC WES samtools
15 months ago
maria2019 • 30
1
Vote
4
Replies
573
Views
What is the right illumina universal adapter sequence for trimming paired-end reads?
WES fastqc trimadaptor
15 months ago
maria2019 • 30 • updated 15 months ago
Vijay Lakhujani 4.1k
3
Votes
2
Replies
193
Views
Does strange fastQC GC content report cause a problem for WES analysis?
fastQC WES GC content
15 months ago
maria2019 • 30 • updated 15 months ago
JC 7.9k
2
Votes
5
Replies
194
Views
Should I specify exome region to do the QC with qualimap2 for WES analysis?
qualimap2 WES QC
15 months ago
maria2019 • 30 • updated 15 months ago
h.mon 25k
3
Votes
10
Replies
365
Views
How can I split WES FASTQ file into sub-files for each chromosome ?
WES split fastq chromosome
15 months ago
Laven9 • 0
1
Vote
0
Replies
184
Views
putative mosaic mutations
mosaic de novo wes sequencing
16 months ago
lait • 130
1
Vote
2
Replies
230
Views
Incorrect number of AD fields (2) at 1:878906 cannot merge
bcftools vcf WES
16 months ago
jaybee • 10
1
Vote
1
Reply
1.3k
Views
What are the best tools/practices for CNV (structural variation) detection/analysis for Illumina family data?
cnv sv snp array wes wgs
3.1 years ago
Irina Astrovskaya • 20 • updated 18 months ago
h.mon 25k
4
Votes
6
Replies
708
Views
Appropriate bed files from library capture kit for computing on target coverage of WES bam files with Picard and CollectHsMetrics
Picard WES bam files on target coverage NGS
19 months ago
svlachavas • 560 • updated 18 months ago
finswimmer 11k
1
Vote
6
Replies
924
Views
Converting TCGA Bam files to fastq: Picard does not work!
wes sequencing
2.9 years ago
jonessara770 • 150 • updated 20 months ago
rmh1995 • 0
0
Votes
0
Replies
314
Views
Qs about mutect2
WES mutect2 gatk
20 months ago
walker • 20
0
Votes
3
Replies
268
Views
Enrichment platforms for 1000GP exome data
data WES
21 months ago
kuckunniwid • 40
3
Votes
6
Replies
769
Views
CNV calling from exome sequencing data with a low number of samples
WES CNV exome copy-number variant
21 months ago
KumaraFM • 0 • updated 21 months ago
toralmanvar • 760
1
Vote
3
Replies
1.6k
Views
SciClone on WES data
sciclone wes clonality varscan dnacopy
3.2 years ago
mar.ark.parr • 30 • updated 21 months ago
aliz0611 • 0
15
Votes
8
Replies
1.8k
Views
Whole exome sequencing data, rare variants and QQ-plots
QQ-plot whole exome sequencing WES
4.1 years ago
felejohs • 70 • updated 21 months ago
zx8754 7.5k
1
Vote
1
Reply
371
Views
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
22 months ago
jonessara770 • 150 • updated 22 months ago
Pierre Lindenbaum 120k
0
Votes
3
Replies
396
Views
differences in covered regions in exome and whole genome sequencing
exome-sequencing WES genome-sequencing WGS
23 months ago
miaowzai • 130 • updated 22 months ago
Biostar 20
0
Votes
1
Reply
410
Views
Database of Mutations and the associated drugs
WES ngs
22 months ago
Ron • 950 • updated 22 months ago
Kevin Blighe 43k
0
Votes
1
Reply
400
Views
CNV analysis from exome sequencing data
cnv wes
23 months ago
mkamranazim • 0
1
Vote
1
Reply
317
Views
Haplotype sharing of mutation carriers
ngs haplotype SNP WES
23 months ago
Lio04 • 0 • updated 23 months ago
Kevin Blighe 43k
1
Vote
3
Replies
372
Views
interpretation of intronic variant detected by WES
WES
23 months ago
jonessara770 • 150
0
Votes
1
Reply
252
Views
How to remove Variants where the Ref and Alt in the reference genome are switched?
NGS WES VariantCalling RefAlt
23 months ago
O.ibra • 0 • updated 23 months ago
Pierre Lindenbaum 120k
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