SEQanswers - Threads Tagged with tophat2

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Threads Tagged with tophat2

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Threads Tagged with tophat2
	Thread / Thread Starter	Last Post	Replies	Views	Forum
	Very low TopHat aligment using public available dataset VIOG	12-03-2018 03:56 PM by GenoMax	1	1,998	RNA Sequencing
	Large number of Unassigned_NoFeature reads from featureCounts aprice67	06-20-2017 07:21 AM by aprice67	7	4,206	Bioinformatics
	Cuffset number of genes too high aprice67	05-25-2017 12:19 PM by aprice67	0	1,791	Bioinformatics
	Not 100% mapping in output bam? ronaldrcutler	01-04-2017 05:31 AM by ronaldrcutler	2	2,491	Bioinformatics
	HTSeq-count: Warning: x reads with missing mate encountered. ronaldrcutler	12-24-2016 08:00 AM by ronaldrcutler	0	4,107	Bioinformatics
	Hisat2: Differing amount of reads in mates ronaldrcutler	12-21-2016 04:59 PM by dcameron	3	3,929	Bioinformatics
	Low tophat2 mapping of paired-end reads Aragion	12-20-2016 10:01 AM by GenoMax	2	1,777	Bioinformatics
	Making sense of tophat output "align_summary.txt" yangjr	11-03-2016 09:20 AM by marika	3	3,683	Bioinformatics
	Is there a difference between a .sam produced by tophat2 and bowtie2? meabh	05-24-2016 08:32 AM by Michael.Ante	1	2,379	RNA Sequencing
	biological replicates cuffmerge? KateShepard	04-28-2016 07:52 AM by KateShepard	3	3,319	RNA Sequencing
	tophat2/2.1.0 error running from bam2fastx natalie_1	02-29-2016 10:02 AM by GenoMax	1	2,200	RNA Sequencing
	extract_only_concordant_paired_reads_from_bam_file kostask	01-31-2016 10:55 AM by kostask	2	2,190	Bioinformatics
	tophat2 aligment ratio reduced when increase insert size huan	12-28-2015 04:01 AM by huan	0	2,022	RNA Sequencing
	Tophat2 can't find Bowtie index files *.ebwt huan	12-20-2015 09:06 PM by huan	2	2,296	Bioinformatics
	Mixing paired-end and single-end reads in Tophat: Do I have to reverse the SE-reads f JonB	12-11-2015 02:08 AM by SylvainL	5	3,021	Bioinformatics
	Mapping paired-end reads, include also the SE-reads after trimming? JonB	12-10-2015 03:03 AM by JonB	2	2,582	Bioinformatics
	TopHat v2.0.13 generates SAM files with few alignment records having empty QUAL field srikant_verma	11-18-2015 09:17 PM by srikant_verma	2	1,785	Bioinformatics
	Tophat2 high discordant alignments ea11	11-06-2015 04:52 AM by ea11	6	2,639	Bioinformatics
	tophat2 error: std out broken pipe ns_seqingAns	10-30-2015 05:36 AM by GenoMax	1	2,504	RNA Sequencing
	tophat2 transcriptome data files created konika	08-11-2015 07:28 AM by GenoMax	1	1,426	RNA Sequencing
	question about RNA-Seq and strandness information ml439	07-28-2015 09:46 AM by ml439	0	1,040	Bioinformatics
	fastq_screen vs. tophat2 frymor	07-03-2015 11:28 AM by Brian Bushnell	1	1,731	Bioinformatics
	Tophat2 output bam size discrepancies Sentinel156	05-19-2015 10:34 AM by Brian Bushnell	1	1,788	RNA Sequencing
	Tophat2: OSError: [Errno 2] No such file or directory genome1	10-15-2014 07:14 AM by konika	5	6,402	RNA Sequencing
	Inputting fastq files into Tophat2 without info on seq platform type skmotay	10-08-2014 01:40 PM by skmotay	7	2,403	RNA Sequencing
	aligning nucleoplasm fraction RNA tomgom	09-18-2014 03:46 AM by tomgom	0	1,493	Bioinformatics
	[bam_parse_region] fail to determine the sequence name SS00	09-09-2014 02:58 AM by SS00	6	2,907	Bioinformatics
	0% Concordant Pair Alignment Rate StevenVanLaere	07-15-2014 02:01 AM by StevenVanLaere	0	2,635	RNA Sequencing
	Tophat2 on Windows 7. Coryza	06-02-2014 07:06 AM by blancha	8	4,971	Bioinformatics
	Tophat2 and hg19 - fail to generate fasta from indexes E_w	05-23-2014 03:59 AM by WhatsOEver	2	4,622	Bioinformatics

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