arden-analyze - analyze the results of the artificial reference genome mapping
arden-analyze [
options] [
INPUT FILE] [
OUTPUTFOLDER]
...
Script to analyze the results of the artificial reference genome mapping. This
script identifies the putative TPs / FPs on a specific data set (reads).
- OUTPUTFOLDER
- path to output destination folder.
- INPUT FILE
- ppath to ini file. To get the required format have a look
at the example files.
- --version
- show program's version number and exit
-
-h, --help
- show this help message and exit
-
-p PHRED, --phred=PHRED
- Specify the PHRED encoding of the input reads i.e. Illumina
1.3+ = -p 33.[default: 33]
-
-r RANK, --internalrank=RANK
- Use internal ranking for reads (needed if the read names
cannot be lexicographically be sorted in the same way in python and your
OS by sam tools).[default:1]