pufferfish

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Hey Team Pufferfish- I'm just wondering your opinions on best practices if I were to want to index many (hundreds? thousands?) of whole human genomes and then query them. Let's...

jeremymsimon

Cedar segfaults with SAM files

1

I cannot seem to get Cedar to properly work without segfaulting. My input SAM is produced by PuffAligner against a CAMI example paired-end FASTQ and a Pufferfish index of 100...

hermidalc

PuffAligner significantly slower at mapping and thread usage is much less than specified when running with `--compressedOutput`

1

I've test both with `--compressedOutput` and without, and surprised how much slower `align` is when it is activated, writing of the compressed SAM file becomes a bottleneck to the entire...

hermidalc