I keep getting the following error message when i use the htseq-count
Error occured when processing SAM input (line 9786565):
'pair_alignments' needs a sequence of paired-end alignments
[Exception type: ValueError, raised in __init__.py:612]
I sorted my sam files using samtools sort -n
On top of this I also get many warnings saying if i am sure sam file is properly sorted or not?
Do you know what is the error message about?
Error occured when processing SAM input (line 9786565):
'pair_alignments' needs a sequence of paired-end alignments
[Exception type: ValueError, raised in __init__.py:612]
I sorted my sam files using samtools sort -n
On top of this I also get many warnings saying if i am sure sam file is properly sorted or not?
Do you know what is the error message about?
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