Hello There,
I have recently begun analysis of some RNAseq data of Nicotiana benthamiana, under various pathogen type treatments. This...
13 results in 0.0022 seconds.
-
Determining strandedness of .bam file (RSeQC)
-
RNA-Seq quantitation for human, paired end vs single end, strand specific or not?
Is there any consensus of opinion on the best RNA-Seq approach for quantitation of alternative splicing on well annotated genomes (e.g. human)? We don’t... -
Problems with cufflinks GTF annotated files and DEXSeq
I'm trying to use a Cufflinks GTF that includes novel isoforms as an input for DEXSeq.
My RNA-Sseq libraries were stranded and my cufflinks command... -
Is The cancer genome atlas (TCGA) RNA-seq data strand specific?
Hi,
I have a simple question:
Is RNAseq data provided by TCGA project strand specific?
I am trying to search... -
Tuxedo -Quantification of reference annotation o
Dear RNA-seq community,
I have run Tuxedo (and data looks good in cummeRbund) but I am wondering if should have done it slightly differently....Last edited by Gonza; 10-06-2014, 04:41 AM. -
Remove overlapping feature from GFF
I'm analysing some stranded RNASeq data and looking at identifying genuine anti-sense transcripts. What I'm finding with my default STAR / htseq-count... -
Directional Illumina read mapping for prokaryotic transcriptomes
Hello SeqAnswers!
I am looking for mapping software to analyze directional/strand-specific RNA-seq data from both paired-end and single-end... -
dUTP/UDG or RNA ligation sequencing method?
Hi community,
I would like to know the strand specificity type of RNA libraries prepared with Ion Total RNA-Seq Kit v2 - Life Technologies... -
RNASeq paired-end strand specific attribute location in FASTA file
According to TopHat documentation ( for --library-type option) if a strand-specific protocol was used in paired-end sequencing there should be an XS attribute... -
Top Hat and library option
I've got a RNA-Seq experiment, whose author said in the paper that used Strand-specific RNA-Seq. Reading the experimental procedures, I've found ,briefly,that... -
Quantifying antisense transcription from strand specific data
Hi all,
I have sequences from strand specific libraries made with the 'dUTP second strand marking' protocol.
I was wondering what... -
Tophat: --library-type option
When using the --library-type option in Tophat the corresponding .sam file produces "XS:A:+" or "XS:A:-" flags for almost all hits.... -
Strand-specific library appears not strand-specific
I just received sequencing results of small RNA fraction (21-25nt) sequenced with HISeq and got puzzling results. Many of the sequences map to known small...
