Latest
Open
RNA-Seq
ChIP-Seq
SNP
Assembly
Tutorials
Tools
Jobs
Forum
Planet
All »
Home
Log In
Showing: gatk • reset
or   Classic search
<prev • 615 results • page 1 of 21 • next >
5
votes
0
answers
125
views
0
answers
How can I find Variants position by GATK and Samtools
gatk samtools snp written 17 days ago by Mbillah • 100 • updated 4 days ago by Biostar ♦♦ 20
0
votes
0
answers
115
views
0
answers
algorithm of gatk re-alignment
gatk realignment algorithm re-alignment written 13 days ago by lffu_0032 • 30
1
vote
0
answers
148
views
0
answers
Standard Practice of making VCF file from SAM file
gatk snp written 20 days ago by hafiz.talhamalik • 30 • updated 12 days ago by Biostar ♦♦ 20
2
votes
1
answer
112
views
1
answer
Difference in Haplotypecaller in GATKv4 Vs Gatk3.7
haplotypecaller gatk written 21 days ago by Nandini • 710 • updated 13 days ago by lffu_0032 • 30
3
votes
0
answers
92
views
0
answers
Same pipeline for exome seq variant calling with different results
bwa-mem fastp snp gatk written 15 days ago by paumarc • 10
2
votes
0
answers
111
views
0
answers
Needed gatk latest version pipline for variant calling
gatk written 16 days ago by Mbillah • 100
0
votes
1
answer
96
views
1
answer
GATK Panel Of Normals (PoN)
gatk beta calling variant written 21 days ago by b.d237 • 30
0
votes
2
answers
535
views
2
answers
Error : Duplicate allele added to VariantContext GATK
vcf gatk malformed variantstotable written 8 months ago by steven.blanchard92 • 0 • updated 28 days ago by brett • 0
0
votes
0
answers
87
views
0
answers
Qs about mutect2
gatk wes mutect2 written 29 days ago by walker • 10
0
votes
0
answers
141
views
0
answers
How can I fix picard error: Sequences at index 0 don't match
gatk picard written 4 weeks ago by Niek De Klein • 2.4k
2
votes
1
answer
93
views
1
answer
GATK BaseRecalibrator No overlapping contigs found ERROR
reads gatk contigs baserecalibrator written 5 weeks ago by marongiu.luigi • 340 • updated 5 weeks ago by Pierre Lindenbaum ♦ 114k
1
vote
1
answer
102
views
1
answer
DP and DP at site do not match using only 1 sample in VCF
vcf variant calling gatk written 5 weeks ago by ajuiwl • 30
1
vote
0
answers
177
views
0
answers
Question about Base calling for pacbio data
genome indel pacbio snp gatk written 7 weeks ago by kamel • 0 • updated 6 weeks ago by Vijay Lakhujani ♦ 3.2k
0
votes
0
answers
160
views
0
answers
Filtering results difference amongst VCF files
gatk snp filtering variants written 6 weeks ago by prasundutta87 • 260
1
vote
0
answers
242
views
0
answers
IncompatibleClassChangeError when running gatk BaseRecalibrator
gatk java baserecalibrator written 7 weeks ago by marongiu.luigi • 340
1
vote
0
answers
361
views
0
answers
Adding read group to bam files from multiplexed samples
gatk picard bam written 4 months ago by serpalma.v • 20 • updated 7 weeks ago by Biostar ♦♦ 20
1
vote
1
answer
286
views
1
answer
GATK 4 GenomeAnalysisTK still available? (Unable to access jarfile)
versions gatk genomeanalysistk written 8 weeks ago by marongiu.luigi • 340
0
votes
0
answers
960
views
0
answers
Calling SNPs on Bisulphite Data
bissnp gatk written 3.0 years ago by John ♦ 12k • updated 8 weeks ago by CEB • 0
4
votes
1
answer
1.3k
views
1
answer
NCBI dbSNP compatibility w/ Ensembl whole genome
ncbi gatk ensembl written 2.8 years ago by umn_bist • 320 • updated 8 weeks ago by RamRS ♦ 19k
5
votes
1
answer
1.4k
views
1
answer
[ERROR] Malformed VCF: empty alleles are not permitted in VCF records
vcf gatk rna-seq written 2.8 years ago by umn_bist • 320 • updated 8 weeks ago by RamRS ♦ 19k
3
votes
1
answer
937
views
1
answer
[GATK] Weird error using Picard SortVcf on COSMIC file
gatk picard rna-seq mutect2 written 2.7 years ago by umn_bist • 320 • updated 8 weeks ago by RamRS ♦ 19k
9
votes
1
answer
171
views
5 follow
1
answer
Problems running variant calling (VC) GATK: SAM/BAM/CRAM file dedup.bam is malformed
gatk vc rna-seq written 8 weeks ago by Lila M • 390
0
votes
0
answers
154
views
0
answers
Identifying de novo variants in a WGS Trio.vcf file
de novo gatk vcf unphased multisample written 8 weeks ago by ClkElf • 20
1
vote
1
answer
1.7k
views
1
answer
GATK dbSNP for Ensembl
gatk snp ensembl written 3.5 years ago by bharata1803 • 380 • updated 8 weeks ago by zx8754 ♦ 5.7k
3
votes
1
answer
1.2k
views
1
answer
best practices to use GATK with PacBio
gatk next-gen sequence snp pacbio written 2.6 years ago by Medhat ♦ 8.0k • updated 9 weeks ago by prasundutta87 • 260
5
votes
0
answers
250
views
0
answers
Using GATK4 Mutect2 on mouse data, need a genome snp reference
vcf gatk mutect2 snp mouse written 9 weeks ago by jc.szamosi • 40
0
votes
0
answers
887
views
0
answers
XHMM GATK exome sequencing deletions genome wide or selected genes ?
gatk genelist xhmm written 2.7 years ago by Floris Brenk • 860 • updated 9 weeks ago by RamRS ♦ 19k
3
votes
1
answer
146
views
1
answer
How can i use combination of both -nct and -nt in GATK?
genome gatk forum next-gen written 10 weeks ago by mandecent.gupta • 0 • updated 10 weeks ago by RamRS ♦ 19k
2
votes
0
answers
202
views
0
answers
Some questions about call variants for mtDNA using GATK HaplotypeCaller
haplotypecaller gatk mtdna written 11 weeks ago by MatthewP • 30
2
votes
1
answer
208
views
1
answer
How to apply GATK on mtDNA sequencing data?
gatk mtdna written 11 weeks ago by MatthewP • 30
<prev • 615 results • page 1 of 21 • next >
Recent Votes
Recent Locations • All »
  • United Kingdom, 1 minute ago
  • United States, 1 minute ago
  • Germany, 1 minute ago
  • Iran, Islamic Republic Of, 5 minutes ago
  • Germany, 6 minutes ago
  • Denmark, 6 minutes ago
Recent Awards • All »
Recent Replies
Content
Help
Access
Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1755 users visited in the last hour