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Threads Tagged with gatk

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Threads Tagged with gatk
	Thread / Thread Starter	Last Post	Replies	Views	Forum
	Pindel and GATK AD Concordance JSThompson	06-08-2017 04:34 AM by JSThompson	1	304	Bioinformatics
	Calling variants when mapping reads from different species than reference gruberjd	05-19-2017 11:52 AM by Brian Bushnell	3	601	Genomic Resequencing
	Live Webinar on Fast and Accurate DNA Variant Calling on 26 Apr 2017 Strandlife	05-16-2017 01:51 AM by Strandlife	2	704	General
	convert snp chip data to VCF format sbaheti	03-14-2017 05:45 PM by Elsie	2	2,807	Bioinformatics
	ASEReadCounter kintany	02-19-2017 06:41 AM by kintany	0	794	RNA Sequencing
	BED to RefSeq gene format gmarco	01-26-2017 06:17 AM by Ronic	3	2,340	Bioinformatics
	Variants called using GATK from samples of Nextera and TruSeq exome enrichment kits bioinf newbie	11-01-2016 04:00 AM by HESmith	1	518	Illumina/Solexa
	GATK and ExomeCNV PandoraMid	05-17-2016 03:26 AM by PandoraMid	0	316	Bioinformatics
	Questions in calling SNPs from RNA-seq reads metheuse	03-17-2016 06:50 AM by exome	11	6,957	Genomic Resequencing
	Confused about RG ID LB even after reading all posts/GATK best practices Studentlost	03-08-2016 03:40 AM by dpryan	3	860	Bioinformatics
	Illumina Truseq Pair end c_ro87	11-30-2015 10:59 AM by c_ro87	0	751	Bioinformatics
	Error with MarkDuplicates in Picard slowsmile	11-01-2015 03:16 AM by zhkzhou	13	12,784	Bioinformatics
	gatk position indel pingu	10-19-2015 03:45 AM by pingu	4	947	Bioinformatics
	Papers Describing Indel Calling Algorithms ndelaney	10-04-2015 02:43 PM by Len Trigg	1	899	Bioinformatics
	Can't run GATK HaplotypeCaller set ploidy = 1 Genomics101	09-29-2015 05:37 AM by Clown_Bassie	1	993	Bioinformatics
	chr20 length problem Waqasuddin Khan	09-26-2015 08:27 AM by Richard Finney	2	880	Bioinformatics
	vcf convert to fasta, the fasta file is not an alingment file wangxueqin	09-04-2015 10:36 PM by wangxueqin	1	1,000	Bioinformatics
	GATK Haplotype Caller calls Indels in SOLID reads that IGV does not Display wariobrega	08-12-2015 06:46 AM by wariobrega	5	2,868	SOLiD
	Normalization by the library size during variant detection NikTuzov	07-17-2015 06:24 AM by NikTuzov	2	798	Bioinformatics
	Mutect Analysis Criteria: Judgement Calls ron128	06-08-2015 01:23 PM by Len Trigg	5	4,697	Bioinformatics
	Pipeline for obtaining phased haplotype sequences w/out references mharve9	06-07-2015 11:34 PM by Sett	3	2,015	Bioinformatics
	Indels quantifications with MiSeq nmerienn	05-04-2015 09:02 AM by nmerienn	9	1,919	Illumina/Solexa
	strange GT values from GATK Joe Dever	04-23-2015 05:28 AM by Joe Dever	0	807	Bioinformatics
	May I consider variants tagged by VQSRTrancheSNP99.90to100.00 or VQSRTrancheSNP99.50? newbird	04-17-2015 04:46 PM by newbird	0	846	General
	Reassign mapping quality in STAR / GATK/ Cufflinks compatibility cbaudo	04-09-2015 06:50 AM by cbaudo	0	1,078	Bioinformatics
	SplitNCigarReads exception Lien	03-30-2015 04:40 AM by Lien	2	1,292	Bioinformatics
	Can I use preproccesed bam files for Cufflinks? cbaudo	03-25-2015 05:54 AM by dpryan	3	1,208	Bioinformatics
	How to use AddOrReplaceReadGroups.jar with Tophat2 BAMs? feralBiologist	02-23-2015 06:12 AM by westerman	3	1,678	Bioinformatics
	Detecting low frequency mutations - GATK spreeth84	02-13-2015 03:26 AM by Zaag	3	2,608	Bioinformatics
	.fasta and .fa are the same file? silenus	02-10-2015 08:13 AM by mbblack	6	3,943	General

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