Releases: Bobay-Ochman/ConSpeciFix
Releases · Bobay-Ochman/ConSpeciFix
Iannis
Harrison
Glass
Feldman
Eastman
New analysis option! Pipeline will generate maps of where on the concatenated genome recombination takes place. Files will be output in a maps
folder.
New features:
- specify number of threads in personal comparison with
-t #
. This is the maximum number of threads used by the comparison process that is launched. - generate maps in
maps
folder. Creates a genome map showing locations of recombination of every strain against every other strain in the population. - specify the name of your
BBH
folder. Useful to rename the BBH folder to something that can be avoided by backup systems, such astmp
. Necessitated by the fact the output of USearch is the only n^2 file operation.
Dun
Cage
Launches the newest feature: personal comparison specified via a command line argument rather than in the configuration.
Additional Fixes:
- specify in config.py how distant files can be before they are excluded (via RAxML distance ratings)
- fixed atomicity error in calc_hm that would sometimes produce corrupted rm1.txt files
Additionally, streamlines the Personal Comparison and Database Building versions of the pipeline to pull from a shared family of scripts, making future updates and bug fixes more effective and efficient. In that vein, this release now includes all scripts, even those not intended for general audiences. The READMEs will point to the bits that are important.