Closed mrvollger closed 5 years ago
Significant updates to the pipeline to allow for HiFi input and a better user interface (I hope).
SDA now uses a python driver script that uses argparse, and executes snakemakes for you. It also makes some many parameters more visible.
Blasr is now removed in favor of pbmm2/minimap2.
SDA is now condensed into fewer snakemakes, and application of SDA de novo to a whole genome can be done with one command.
Finally summary plots are made automatically, as well as a merged fasta, and several summary tables.
I am working towards a versioned release of SDA.
Significant updates to the pipeline to allow for HiFi input and a better user interface (I hope).
SDA now uses a python driver script that uses argparse, and executes snakemakes for you. It also makes some many parameters more visible.
Blasr is now removed in favor of pbmm2/minimap2.
SDA is now condensed into fewer snakemakes, and application of SDA de novo to a whole genome can be done with one command.
Finally summary plots are made automatically, as well as a merged fasta, and several summary tables.
I am working towards a versioned release of SDA.