22 results in 0.0059 seconds.
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Using the rapid sequencing kit for cDNA
We haven't done RNA-seq with the minion yet, but have an extra Rapid Sequencing kit lying around. I am wondering if there's anything "wrong"... -
unique isoform detection using IsoSeq
Hi all,
I launched Iso-Seq on my RNA data (D. melanogaster). My aim is to see how many isoforms per gene are there in my sample. I am... -
MISO: Best-guessing insert size and stddev versus running single-ended for PE data
I am conducting a miso analysis for a single gene on a large number of Paired End RNAseq bams that is spread out on several external HDs (twenty 4tb drives).... -
RSII mapper benchmarking
Hi all,
I have RNA sequencing data (D. melanogaster) from 3 libraries (1-2Kb, 2-3Kb, 3-7Kb). What would be your suggestion for a mapper?... -
ONT MinION mapper benchmarking
Hi all,
I have RNA sequencing data (D. melanogaster) from r7 and r9 flowcells. What would be your suggestion for a mapper? I'm mostly... -
Differentially expressed isoforms with Miso
Hi all,
I was recommended Miso for alternative splicing analysis. Now, I have a question on how to do this in comparison with two groups...Last edited by ninni; 01-12-2016, 01:29 AM. -
Trying to find where an Isoform of a gene is expressed in normal tissue
Hello. I have the sequence of a particular isoform of a gene I'm interested in and I am trying to find out where it is normally expressed in the human... -
distribution of isoforms per gene
Hello,
I was wondering whether the vector of isoform counts, corresponding to a specific gene, can be assumed to follow a multinomial distribution,... -
gene FPKM from eXpress
Hello,
I want to calculate gene-level FPKM values from eXpress data. From eXpress output, I have FPKM values for each isoform of a gene.... -
DESeq2 for isoform level
Hello,
(1) I was wondering whether DESeq2 is appropriate to test for differentially expressed isoforms? If we have raw counts (on isoform... -
Salmon: A fast and versatile new tool for RNA-seq quantification
Hi all,
I'd like to let you all know about Salmon, a new tool we've been developing for isoform-level quantification from RNA-seq data.... -
The 'isoform_exp.diff' file after Cuffdiff contains genes that don't have isoforms.
I run cuffdiff and I'm looking for differentially expressed isoforms in my tissue samples, but my isoform_exp.diff file contain genes that don't have... -
Isoform ratio investigation in RNA-Seq
Given:
2 samples with bio replicates, along with 1 control
FPKM values for each gene
FPKM values for each isoform of each gene... -
Differential isoform expression in cuffdiff: how does it work?
I am running an analysis in CuffDiff using a GFF file of annotations from FlyBase (www.flybase.org). The GFF file contains annotation data for genes,... -
HIDATA to LOWDATA status and now false p value Cuffdiff isoform_exp.diff
Hello SeqAnswers community,
When I first tried to run cuffdiff, I found that I had many HIDATA status for my isoform_exp.diff. After running...
