-
STAR-Aligner different Ensembl-genome- and -gtf-release
Hi there,
I am using STAR-Aligner to align my RNASeq Data. To generate the genome I have given STAR an Ensembl GRCh38 genome-FastaFile and gtf-File. Now I noticed, that my genome is release 77 (because this was recommended in the STAR manual) and my gtf is release 82. Will this different releases be a problem in further analysis? In detail:
- Problem for Alignment?
- Problem for counting reads intern in Star-Aligner with htseq during the Alignment step?
- Problem for counting reads extern? (and which release should be used here?)
- Problem for counting Splice Junctions intern in Star-Aligner?
Thanks for your help
-
The complexity of cancer is clearly demonstrated in the diverse ecosystem of the tumor microenvironment (TME). The TME is made up of numerous cell types and its development begins with the changes that happen during oncogenesis. “Genomic mutations, copy number changes, epigenetic alterations, and alternative gene expression occur to varying degrees within the affected tumor cells,” explained Andrea O’Hara, Ph.D., Strategic Technical Specialist at Azenta. “As...07-08-2024, 03:19 PM
Leave a comment: