PAVFinder 0.4.2 (Oct 23, 2017)
Changes to improve robustness of tap.py
For additional information about this project, please visit the overview page .
Available downloads
Release Notes
State | Final release |
---|---|
License | BCCA (academic use) |
Release Manager | Readman Chiu |
tap.py
for running the TAP(Targeted Assembly Pipeline).
Change log
- chimera subseq checking improvements/fixes: determine subseq length from fasta file instead of cigar string in BAM file (hard-clip creates problem), multi-map checking requires mapping of entire sequence instead of just checking targets
-
requires
samtools
version >= 1.0 becausesamtools sort
command changes - creates ruffus history file in output directory
- explicity index fasta file after merging is done and before analysis scripts are run
-
determine
num_proc
parameter for runningfind_sv.py
-
changed name of one of duplicated
format_read_pairs()
functions - fixed bug if suppl_annot is not str