Hello guys,
I'm analyzing the gene expression profiling in nematode and I want to generate a FASTA file containing the sequence of all the transcripts using Salmon.
It seems that the program can't find a fasta file although I checked and I have in the genome folder named transcripts.fa
It might be that this file contain a sort of error?
Here is the code
Thank you
I'm analyzing the gene expression profiling in nematode and I want to generate a FASTA file containing the sequence of all the transcripts using Salmon.
It seems that the program can't find a fasta file although I checked and I have in the genome folder named transcripts.fa
It might be that this file contain a sort of error?
Here is the code
Code:
Patrizios-MBP:processing patrizio$ gffread -w genome/transcripts.fa -g genome/ce11.fa annotation/ce11_genes.gtf Warning: couldn't find fasta record for 'I'! Warning: getSpliced(NULL,.. ) called! Warning: couldn't find fasta record for 'I'! Warning: getSpliced(NULL,.. ) called! Warning: couldn't find fasta record for 'I'! Warning: getSpliced(NULL,.. ) called! Warning: couldn't find fasta record for 'I'!
Thank you