Redundancy in Ensembl GTF
Hi All,
I have an Pre!Ensembl GTF file that has redundant features. The file is from a non-model organism and has uniprot IDs from two or more species corresponding to each gene.
I'd like to use the GTF file for counting with HTSeq but most of the reads are classified as ambiguous.
Has anyone encountered this before, any ideas?
Colin
• 1,409 views
•
link
written
by
colin986 •
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
RNA-seq anlaysis > coding region vs. non coding region
written by maplewj •
-
What tools are available for downstream analysis of 10x scATAC-seq in entirely new organisms?
written by Chilly •
-
How to use HOMER with ensembl gtf and get detailed annotations
written by bencom •
-
What dataset do I use to annotate a transcriptome? Another transcriptome or a genome?
written by pseudacris •
-
Abundance Counting for Non-Model Organism for edgeR
written by sdbaney •
-
htseq-count with zero features
written by shenwei1376 •
-
Ensembl GTF for Mouse that includes intron, exons, utrs, etc.
written by achamess
-
How to convert a list of Uniprot IDs to Entrez IDs from different species?
written by ypll •
-
Crab eating macaque (M. fascicularis) transcriptome GTF file
written by karthik •
-
htseq-count produces no features amid alignment
written by bojingjia •
