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<prev • 108 results • page 1 of 4 • next >
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can VarScan2 do joint somatic calling?
varscan somatic calling snp written 6 weeks ago by Zoey Zou • 30
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Running time in different callers
varscan snv mutect wgs written 7 weeks ago by F • 3.4k
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2
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Finding SNPs per gene for SNP Density in UNIX
varscan grep unix snp written 3.6 years ago by crawlthrutacos • 0 • updated 8 weeks ago by Biostar ♦♦ 20
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1.6k
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Gold Standard for Human cancer exome sequencing
somatic wes varscan mutect cancer written 2.6 years ago by Jerome Lin • 20 • updated 10 weeks ago by Biostar ♦♦ 20
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2
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139
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bam-readcount error Expect Library
varscan snp bam-readcount sequencing written 11 weeks ago by 9521ljh • 10 • updated 11 weeks ago by Pierre Lindenbaum ♦ 120k
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Problem in converting vcf to maf using vcf2maf tools
varscan grch38 vcf2maf written 3 months ago by Raheleh • 70
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188
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1
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How to annotate Copy Number Variations (Output of VarScan2)
varscan cnv annotation written 3 months ago by Raheleh • 70 • updated 3 months ago by Pierre Lindenbaum ♦ 120k
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288
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1
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VarScan: How is the DP score in a .vcf calculated?
vcf varscan written 4 months ago by James Reeve • 80 • updated 4 months ago by igor ♦ 7.7k
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244
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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 4 months ago by tarekzakaria.badr • 30 • updated 4 months ago by Charles Warden ♦ 6.8k
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Can I use VarScan for tumor_time2/tumor_time1 CNA and SNP calling?
cna varscan cnv snp written 6 months ago by Pin.Bioinf • 250 • updated 6 months ago by Biostar ♦♦ 20
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8 follow
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Work With Dnacopy (Bioconductor) And Varscan Copynumber Results
varscan bioconductor copynumber written 7.9 years ago by Mdeng • 520 • updated 6 months 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 7 months ago by Raheleh • 70
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Finding somatic and germline variations in tumor samples with matched ones (paired-end, illumina)
varscan wes data mpileup file written 7 months ago by Raheleh • 70 • updated 7 months ago by ATpoint ♦ 17k
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309
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Problem understanding GT from Varscan's vcf output
varscan written 7 months ago by ww22runner • 0 • updated 7 months ago by RamRS ♦ 22k
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247
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How to Interpret Deletions from varscan?
variants varscan indels alignment deletion written 8 months ago by athulmenonk • 0
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371
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Calling somatic variants with Varscan
varscan written 8 months ago by ww22runner • 0
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SciClone on WES data
dnacopy varscan clonality wes sciclone written 2.1 years ago by mar.ark.parr • 30 • updated 8 months ago by aliz0611 • 0
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268
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Varscan read count output conversion
varscan written 8 months ago by shubhra.bhattacharya • 120
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1
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416
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How to get "normal.pileup" file for varscan somatic calling
varscan written 9 months ago by aadam35411 • 0 • updated 9 months ago by ATpoint ♦ 17k
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304
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Losing somatic SNPs
varscan snp varaft written 10 months ago by gab • 20 • updated 10 months ago by Biostar ♦♦ 20
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1
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609
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1
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How to keep sample name while using samtools mpileup + varscan to do variant call?
varscan samtools mpileup written 11 months ago by MatthewP • 110 • updated 11 months ago by Pierre Lindenbaum ♦ 120k
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Varscan fpfilter error
varscan snp fpfilter bam-readcount somatic written 11 months ago by a01039012387 • 10 • updated 11 months ago by RamRS ♦ 22k
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313
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Why VarScan always get more somatic variants than other caller
varscan variant written 11 months ago by CY • 370
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538
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Varscan somatic caller - Genotype calls
varscan somatic written 12 months ago by hsbinf • 20
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1
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5 follow
1
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Copy number variation detection
varscan copy number variation snp written 13 months ago by v27 • 10 • updated 13 months ago by d-cameron • 2.0k
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461
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varscan somatic without normal
varscan mutation written 13 months ago by fabbri.marco • 0
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524
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SNP/indel annotation in Arabidopsis
indel varscan arabidopsis snp written 14 months ago by Federico Giorgi • 490 • updated 14 months ago by finswimmer ♦ 11k
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450
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identifying TP53 germline mutations which are also in tumor cells.
somatic germline tp53 mutect varscan written 16 months ago by lait • 130 • updated 16 months ago by Noushin N • 550
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varscan copy number error
varscan cnv written 18 months ago by mittu1602 • 150
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578
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Why CNV calling using VarScan need two steps of fragments merging?
varscan copy number variant cnv written 18 months ago by CY • 370 • updated 18 months ago by arta • 540
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