Hi all
When using htseq-count with sam-files from tophat and gff files from cufflinks, i got following error:
Error occured in line 1 of file /home/ubelix/sm/mm08c348/counts/ilc31se.sorted.sam.
Error: Strand must be'+', '-', or '.'.
[Exception type: ValueError, raised in _HTSeq.pyx:72]
cmd: htseq-count -t transcript -i ID -s no file.sam cufflinks.gff' > htseq-count
I checked for the strands in gff file, they look ok (either . - or +). sam file was sorted using sort -n on the bam precursor, so should be ok.
Any help on this issue would be appreciated!!
Thank you!
Michel
When using htseq-count with sam-files from tophat and gff files from cufflinks, i got following error:
Error occured in line 1 of file /home/ubelix/sm/mm08c348/counts/ilc31se.sorted.sam.
Error: Strand must be'+', '-', or '.'.
[Exception type: ValueError, raised in _HTSeq.pyx:72]
cmd: htseq-count -t transcript -i ID -s no file.sam cufflinks.gff' > htseq-count
I checked for the strands in gff file, they look ok (either . - or +). sam file was sorted using sort -n on the bam precursor, so should be ok.
Any help on this issue would be appreciated!!
Thank you!
Michel
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