Mike Axtell
Mike Axtell
The dropbox link to the example Trapnell results , https://www.dropbox.com/s/eqx3jmylgns4wd3/Trapnell_results.zip?dl=1 , referenced in the walkthrough at https://pachterlab.github.io/sleuth_walkthroughs/trapnell/analysis.html is a 404 not found.
First, off: Thanks for this great tool! It's very useful. I have a feature request for you to consider: The current guppy basecaller has an option called '--calib_detect'. When engaged,...
Description of Counts.txt in README is not accurate and needs to be updated.
Current version (1.4) gives incorrect results for alignments with indels, introns, or clipping relative to the reference. Major issue! Thanks to Jiyoung Lee for finding this.
ShortStack adds three custom tags to BAM files that it creates .. these custom tags should be described in the README.
It would be nice if the `--autotrim` process provided a nicer summary of the results of read trimming .. preferably one which is easy to use to create plots by...
Currently in 4.1.0, when `--autotrim` fails to figure out the adapter to use, it quits the whole run. Which is fine and good, except that it should report *which* library...