SEQanswers - Threads Tagged with tophat 2

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Threads Tagged with tophat 2

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Threads Tagged with tophat 2
	Thread / Thread Starter	Last Post	Replies	Views	Forum
	TopHat v2.1.1- Warning: TopHat did not find any junctions in GTF file Munmun	07-17-2018 06:04 AM by Munmun	0	1,675	RNA Sequencing
	RNASeq de novo from TopHat unmapped.bam demold	05-11-2018 06:07 AM by offspring	2	3,353	RNA Sequencing
	Issue with Htseq-count on BAM files from Tophat2 using Galaxy Enriquez	10-04-2017 02:49 PM by neavemj	3	2,803	RNA Sequencing
	GeneMark-ES error: parse_ET.pl line 213 Invalid regression data elximo	10-23-2016 08:40 PM by johnng wang	2	2,384	Bioinformatics
	TopHat2 fusion-search : SeqAn error bibi	10-12-2016 02:35 PM by Pramodbm	1	2,646	Bioinformatics
	hisat2 multiple thread usage ronaldrcutler	06-16-2016 10:12 AM by ronaldrcutler	6	6,015	RNA Sequencing
	Tophat2 chose a match with a deletion over one without samhokin	05-31-2016 02:50 PM by samhokin	0	1,105	RNA Sequencing
	tophat gene information edeka	05-02-2016 07:00 AM by dpryan	5	1,423	Bioinformatics
	Low mapping rate of TSS-data (5'-seq) JonB	02-15-2016 05:09 AM by Michael.Ante	3	2,341	RNA Sequencing
	Adapter_and_kmer_trimming kostask	01-22-2016 06:58 PM by Brian Bushnell	3	2,318	Bioinformatics
	Tophat/Bowtie TPH	01-15-2016 02:46 PM by TPH	6	2,474	Bioinformatics
	SMARTer Ultra low RNA Kit Primers are found in sequencing data and Tophat questions TEFA	12-02-2015 08:48 AM by efrainrib	12	6,426	Sample Prep / Library Generation
	TopHat2 command fk566938	11-21-2015 11:50 AM by Brian Bushnell	4	4,274	Bioinformatics
	Identifying splice junction with STAR frymor	08-18-2015 11:56 PM by frymor	3	3,377	Bioinformatics
	STAR vs tophat2 - mapping reads to long exons frymor	08-18-2015 03:17 PM by Brian Bushnell	7	3,608	Bioinformatics
	TopHat -M/--prefilter-multihits; unmapped reads imsharmanitin	07-01-2015 11:00 AM by GenoMax	1	1,216	RNA Sequencing
	transcriptome_index Bowtie2 Index imsharmanitin	06-30-2015 05:43 PM by imsharmanitin	4	3,515	Bioinformatics
	library type for single end RNA-seq data imsharmanitin	06-30-2015 04:34 PM by GenoMax	3	2,527	Bioinformatics
	Does anyone know how cufflinks counts stranded data? JonB	05-27-2015 08:17 AM by JonB	0	1,446	Bioinformatics
	calculations of tophat BlockSizes and BlockStarts frymor	10-08-2014 09:47 AM by frymor	0	973	Bioinformatics
	tophat2 some parameters are not working (--no-novel-indels and -a) statsteam	05-28-2014 05:45 PM by statsteam	1	1,183	Bioinformatics
	tophat taking too long to run fahim	05-14-2014 08:59 AM by blancha	7	3,590	RNA Sequencing
	cufflinks with GTF file goutham.atla	04-11-2014 02:24 AM by yueluo	1	1,199	Bioinformatics
	Mapping stranded smallRNA reads with TopHat JonB	02-14-2014 06:05 AM by GenoMax	1	1,616	Bioinformatics
	Tophat2 bowtie location lucro	02-12-2014 09:20 AM by lucro	4	1,583	Bioinformatics
	Tophat2: Error running bowtie: JonB	01-18-2014 04:09 AM by Nextgenanalysis	5	4,666	Bioinformatics
	where is real problem, tophat2 code or my fastq files manvendra7	09-30-2013 04:55 PM by arkilis	4	2,278	Bioinformatics
	troubleshoot with tophat2 or problem with my fastq files manvendra7	09-30-2013 04:53 PM by manvendra7	4	2,534	RNA Sequencing
	appropriate gtf/gff file for repeat element expression manvendra7	09-04-2013 09:30 AM by manvendra7	0	1,874	Bioinformatics
	Tophat2 giving unreasonably long junctions allind	08-27-2013 11:50 AM by ExMachina	1	1,776	RNA Sequencing

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