Package for checking for the presence/absence of markers against a set of samples
Project description
seqPresenceAbsence
Requirements
- Python 3.6
- ncbi-blast+ (makeblastdb and blastn must be in your $PATH)
Installation
pip install seqPresenceAbsence
Usage
Usage: seqPresenceAbsence [OPTIONS]
seqPresenceAbsence is a simple script for querying an input FASTA file
against a database of sequences. Will return an .xlsx and .csv report
of presence/absence of the sequences.
Options:
-i, --indir PATH Path to directory containing FASTA files you want to
query [required]
-t, --targets PATH Path to multi-FASTA containing targets of interest
[required]
-o, --outdir PATH Root directory to store all output files [required]
-v, --verbose Set this flag to enable more verbose logging.
--help Show this message and exit.
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