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<prev • 103 results • page 1 of 4 • next >
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VarScan: How is the DP score in a .vcf calculated?
vcf varscan written 26 days ago by James Reeve • 50 • updated 26 days ago by igor ♦ 7.3k
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Can a normal tissue sequence be used for various tumor samples in Varscan Somatic or GATK MuTect2?
gatk varscan mutect2 written 29 days ago by tarekzakaria.badr • 30 • updated 28 days ago by Charles Warden ♦ 6.1k
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Can I use VarScan for tumor_time2/tumor_time1 CNA and SNP calling?
cna varscan cnv snp written 11 weeks ago by Pin.Bioinf • 230 • updated 9 weeks ago by Biostar ♦♦ 20
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Work With Dnacopy (Bioconductor) And Varscan Copynumber Results
varscan bioconductor copynumber written 7.6 years ago by Mdeng • 510 • updated 11 weeks ago by noonbobnoon • 10
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Error in normalizing lines of sequence in a fasta file using NormalizeFasta (Picard)
normalizefasta picard bam-readcount varscan written 3 months ago by R.A. • 50
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Finding somatic and germline variations in tumor samples with matched ones (paired-end, illumina)
varscan wes data mpileup file written 3 months ago by R.A. • 50 • updated 3 months ago by ATpoint ♦ 13k
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206
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Problem understanding GT from Varscan's vcf output
varscan written 3 months ago by ww22runner • 0 • updated 3 months ago by RamRS ♦ 20k
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162
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How to Interpret Deletions from varscan?
variants varscan indels alignment deletion written 4 months ago by athulmenonk • 0
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255
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Calling somatic variants with Varscan
varscan written 4 months ago by ww22runner • 0
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SciClone on WES data
dnacopy varscan clonality wes sciclone written 21 months ago by mar.ark.parr • 30 • updated 4 months ago by aliz0611 • 0
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Varscan read count output conversion
varscan written 4 months ago by shubhra.bhattacharya • 120
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How to get "normal.pileup" file for varscan somatic calling
varscan written 5 months ago by aadam35411 • 0 • updated 5 months ago by ATpoint ♦ 13k
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253
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Losing somatic SNPs
varscan snp varaft written 7 months ago by gab • 20 • updated 6 months ago by Biostar ♦♦ 20
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How to keep sample name while using samtools mpileup + varscan to do variant call?
varscan samtools mpileup written 7 months ago by MatthewP • 60 • updated 7 months ago by Pierre Lindenbaum ♦ 116k
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Varscan fpfilter error
varscan snp fpfilter bam-readcount somatic written 7 months ago by a01039012387 • 10 • updated 7 months ago by RamRS ♦ 20k
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240
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Why VarScan always get more somatic variants than other caller
varscan variant written 7 months ago by CY • 270
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359
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Varscan somatic caller - Genotype calls
varscan somatic written 9 months ago by hshah • 20
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5 follow
1
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Copy number variation detection
varscan copy number variation snp written 9 months ago by v27 • 10 • updated 9 months ago by d-cameron • 2.0k
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317
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varscan somatic without normal
varscan mutation written 9 months ago by fabbri.marco • 0
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SNP/indel annotation in Arabidopsis
indel varscan arabidopsis snp written 10 months ago by Federico Giorgi • 450 • updated 10 months ago by finswimmer ♦ 10.0k
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1
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350
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identifying TP53 germline mutations which are also in tumor cells.
somatic germline tp53 mutect varscan written 12 months ago by lait • 120 • updated 12 months ago by Noushin N • 530
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varscan copy number error
varscan cnv written 14 months ago by mittu1602 • 150
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Why CNV calling using VarScan need two steps of fragments merging?
varscan copy number variant cnv written 14 months ago by CY • 270 • updated 14 months ago by arta • 540
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phasing variants produced by varscan
gatk trio analysis varscan phasing variants written 14 months ago by lait • 120
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527
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Correcting SNV allele frequency
wgs varscan snv allele frequency written 15 months ago by ATpoint ♦ 13k
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475
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does varscan2 trio mode perform joint genotyoing?
trio varscan joint genotyping variant germline written 15 months ago by lait • 120
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Variant Calling in Low-Complexity Regions
indel low-complexity variants snp varscan written 16 months ago by ATpoint ♦ 13k • updated 15 months ago by Biostar ♦♦ 20
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Running THetA2 with Varscan input?
varscan theta tumorpurity written 20 months ago by hshah • 20 • updated 16 months ago by j.p.albrecht • 30
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1
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735
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VarScan2 Parsing Error
varscan java written 17 months ago by ATpoint ♦ 13k
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Tool: Varscan: Variant Detection In Massively Parallel Sequencing Data
indel varscan tool snp written 6.8 years ago by Istvan Albert ♦♦ 79k • updated 18 months ago by AcademicDialysis • 60
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