sep241events

Export deconvolution results for each individual event in the data. Each end of a fragment is considered an event. The output format is one bed-like tab-separated text table per channel: c1.bed and c2.bed. The columns of the two tables correspond to:

chrom, chromStart, chromEnd, name, likelihood, location-marginal likelihood

Where likelihood corresponds to the likelihood of the event to originate from the respective target and location marginal likelihood ignores the length of the associated fragment and only uses the genomic-location-specific target likelihood. The one-dimensional genomic-location-specific target likelihood can also be exported with sep241mkbw.

usage: sep241events [-h] [-l LEVEL] [--logfile logfile] [-o out_dir]
                    [--no-check] [--no-progress] [--force] [--exclude-flipped]
                    [jobdata-file]

jobdata-file

Jobdata with cuts per interval and workchunk ids.

-h, --help

show this help message and exit

-l {DEBUG,INFO,WARNING,ERROR,CRITICAL}, --log {DEBUG,INFO,WARNING,ERROR,CRITICAL}

Set the logging level (default=INFO).

--logfile <logfile>

Write detailed log to this file.

-o <out_dir>, --out <out_dir>

Output directory (default is the path of the jobdata).

--no-check

Do not test for flipped length distributions.

--no-progress

Do not show progress.

--force

Make bigwigs even if some results are missing.

--exclude-flipped

Exclude results from workchunks with flipped length distribution.