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cdna_alignment_orf_to_genome_orf.pl #181
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Hi,
The best thing to do is to look at some of the example / sample data
included with transdecoder. It looks like taco is probably not compatible
with the current formatting.
…On Wed, Aug 30, 2023 at 8:58 AM isnmn ***@***.***> wrote:
Hi,
I'm trying to combine my TACO output and TD output within this command but
it returns error:
$TD_PATH/util/cdna_alignment_orf_to_genome_orf.pl
longest_orfs.cds.transdecoder.gff3 ../TACO/output/assembly.gtf
TransDecoder_out.fa
Error, cannot parse ID from info [tss_id "TSS45"; locus_id "L3"; abs_frac "1.00000"; rel_frac "1.00000"; expr "0.466"; transcript_id "TU45"; gene_id "G45";
] of line chr1 taco transcript 170165 449773 1000 - . tss_id "TSS45"; locus_id "L3"; abs_frac "1.00000"; rel_frac "1.00000"; expr "0.466"; transcript_id "TU45"; gene_id "G45";
Could you help please?
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--
--
Brian J. Haas
The Broad Institute
http://broadinstitute.org/~bhaas <http://broad.mit.edu/~bhaas>
|
I noticed that TransDecoder.Predict produced empty pep file with this error:
Well nevermind, I solved this problem. I'll try cufflinks not TACO for the previous issue: |
Hi,
I'm trying to combine my TACO output and TD output within this command but it returns error:
$TD_PATH/util/cdna_alignment_orf_to_genome_orf.pl longest_orfs.cds.transdecoder.gff3 ../TACO/output/Taco_GffRead_assembly.gff TransDecoder_out.fa
Could you help please?
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