search

Magdoll / Cogent

Coding Genome Reconstruction using Iso-Seq data
BSD 3-Clause Clear License
60 stars 17 forks source link

failed reconstruction #74

Closed qiuxx221 closed 5 years ago

qiuxx221 commented 5 years ago

Hi, I finished the run, most reconstruction was successful. However, there is 153 failed transcripts reconstruction, are there any ways to rerun those failed ones as a batch file?

Magdoll commented 5 years ago

Hi @qiuxx221 , The failed runs usually indicate you need to go in manually and play around with the kmer size...so right now I haven't really supported failed runs with batch file. You can probably process the failed run directories and generate new commands with varying kmer sizes.

-Liz