Question: Gffread error: Error (GFaSeqGet): subsequence cannot be larger than...
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gravatar for jjrin
3.1 years ago by
jjrin20
jjrin20 wrote:

Hello Biostars

I have a gtf annotation file produced by StringTie and a reference genome (fasta file). I am trying to use gffread to make a fasta file using the gtf file as reference for what sequences I want but I keep getting this error

Error (GFaSeqGet): subsequence cannot be larger than 225
Error getting subseq for MSTRG.51.1 (1..227)!

I know that all of the chromosomes are named appropriately and that this is the matching genome file. What else could I do to try to fix this error. I found many posts about this on the internet but they were all unanswered or due to differently named chromosomes, which I know is not a problem here. Thank you.

rna-seq gffread stringtie • 1.5k views
ADD COMMENTlink modified 22 months ago by spriyar10 • written 3.1 years ago by jjrin20
1
gravatar for spriyar
22 months ago by
spriyar10
North Carolina
spriyar10 wrote:

Were you able to figure this out? I am having the same problem!

ADD COMMENTlink written 22 months ago by spriyar10
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