Showing: gatkreset
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Pipe SamToFastq, BWA mem not working
gatk sam bwa pipe written 4 months ago by abbysue10 • updated 1 day ago by Marco Pessoa0
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stats file in Mutect2 calling
gatk written 10 weeks ago by dentepre0 • updated 4 days ago by vipulbhatia240
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Undefined variable error in linux
sequencing seq linux gatk written 6 days ago by karthick.n10 • updated 6 days ago by Pierre Lindenbaum124k
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soft-clipping during alignment and variant calling query
variant calling bwa-mem alignment gatk written 4 weeks ago by prasundutta87360 • updated 11 days ago by Biostar ♦♦ 20
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CollectHsMetrics per_base_coverage results quirk
gatk mitochondrial variant calling written 27 days ago by a.j.wilson000010 • updated 19 days ago by houkto70
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How to get chrM chr1 ...chr22 chrX chrY order in my bam file
gatk picard snp bam sort written 27 days ago by Ada0 • updated 26 days ago by jkbonfield200
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Using GATK AddOrReplaceReadGroups
gatk written 27 days ago by vctrm6710 • updated 26 days ago by Pierre Lindenbaum124k
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RealignerTargetCreator (GATK) contig issue
gatk written 22 months ago by win810 • updated 28 days ago by Biostar ♦♦ 20
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Use of GATK HaplotypeCallerSpark
gatk written 4 weeks ago by raf.marcondes20
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Combine samples in bam/vcf
gatk written 5 weeks ago by vctrm6710 • updated 5 weeks ago by Pierre Lindenbaum124k
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Error when unzipping .gz files from GATK?
gatk written 5 weeks ago by vctrm6710 • updated 5 weeks ago by RamRS24k
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Extracting specific SNPs from VCF
vcf gatk snp written 7 weeks ago by igor0 • updated 7 weeks ago by Kevin Blighe51k
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Reducing block size used in Spark versions of GATK tools
gatk dna block size spark written 10 weeks ago by aalith10 • updated 7 weeks ago by Biostar ♦♦ 20
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HaplotypeCallerSpark How to use
gatk snp written 9 weeks ago by nanoide30 • updated 7 weeks ago by lakhujanivijay4.6k
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Parsing through VCF annotated by Funcotator
vcf gatk annotated funcotator written 4 months ago by abbysue10 • updated 8 weeks ago by jonnsmith0
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How to handle allosomes and chrM in GATK?
gatk chrm snp wgs written 10 weeks ago by arup1.9k
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BwaMemIndexImageCreator fails to generate reference.img file
gatk reference genome index written 12 weeks ago by fmail12210 • updated 9 weeks ago by 7ehuang0
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