Open ATpoint opened 6 years ago
+1
Has this been implemented?
It does not appear to be implemented as of 2.2.0.
@parkchanhee - it looks like you are the one most active maintaining this code... Would a PR implementing this feature be likely to be accepted?
@bwlang Yes, I think it is a good idea to add the feature to HISAT2. We will review it once you make the PR. I think it will be accepted.
I can't work on this right away... but it's good to know that you would be interested in the PR if someone gets to it before I do.
+1 for adding this feature
Would it require a larger efford to implement the --interleaved option for interleaved input fastq files as in bowtie2? Would allow to pipe reads directly from the quality/adapter trimmer into hisat without any intermediate files.
best, Alex