Hi all,
I could write I parser for this. But before I do so, I thought it was worth asking here since I imagine someone else has done...
18 results in 0.0022 seconds.
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Longest Isoform: NCBI annotation pipeline
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StringTie - isoforms not overlapping
Hi,
I am using StringTie for transcriptome reconstruction and identification of new isoforms.
While I was exploring the "[file]-transcripts.gtf"...Last edited by pbarros; 04-26-2017, 03:22 AM. -
Tool to find splice variants
Hi,
I have several experimental groups with more than one samples each.
I want to find out (for a group of genes) which... -
d reverse complement sequences
Hi, I am new to RNAseq and not a bioinformatician so please take my apologies if these are basic questions. After mRNA Illumina PE sequencing of 6 brain... -
Extract a fasta sequence based on Id AND length
Hi all !
After several days looking and testing, I'm finally here, looking for help...
I have a large multi fasta file from... -
Isoform quantification, sanity check
Hi!
Im studying adipose and skeletal muscle tissue atm. As a quick sanity check of Cuffdiff results on isoforms, I want to look at well... -
Cuffdiff - NO TESTED isoform
Hi !
I have one question. Analysing one gene differentially expressed by Cuffdiff, i saw that all of your isoforms are not differentially expressed.... -
Alternative splicing versus incomplete splicing?
In cDNA generated from poly-A reverse transcription of RNA, is it possible that PCR will detect incompletely spliced mRNA? How does one differentiate... -
How to assemble mRNAs from gff file?
I have a gff file of genes that exist in mulitple isoforms and often several versions of mRNAs. I want to assemble all the exons for each gene to represent... -
How can a short read be assigned to a particular transcript isoform?
Okay, first post, I hope I can explain this. I am interested in transcripts that encode ERCC5 isoforms. and according to this (and other sources), there... -
rDiff - error while getting gene expression
Hi everybody,
I was wondering if anybody could help with an error message I am receiving for the differential isoform analysis software... -
Trinity contig filtering
Hey Everyone!
I'm assembling RNA-Seq data from 6 related taxa in the basal eudicots and doing some statistical analysis on the abundance... -
isoform lengths to gene length
Hello everybody,
I was wondering if it was possible, from a list of its isoform lengths to calculate the gene length. I know RSEM is doing... -
EST alignments without genome
Hi all,
Wondering if anyone could offer me some suggestions on how to approach an analysis. Currently, I am examining a transcriptome... -
Trinity Assembly, Isoforms vs. Paralogs?
Hello Everyone,
I am in the midst of going through a denovo non-model plant transcriptome assembly using Trintiy. I have so far been unable to...
