nanopolish-software
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Table of Contents
nanopolish
Software package for signal-level analysis of Oxford Nanopore sequencing data. Nanopolish can calculate an improved consensus sequence for a draft genome assembly, detect base modifications, call SNPs and indels with respect to a reference genome and more (see Nanopolish modules, below).
Information
- Version: 0.10.2
- Added: November, 2018
Usage
See versions which are available:
$ module avail nanopolish
Load one version into your environment and run it:
$ module load nanopolish/0.10.2 $ nanopolish help
Installation
Notes from the sysadmin during installation:
$ cd /tmp $ git clone --recursive https://github.com/jts/nanopolish.git $ cd nanopolish $ git checkout v0.10.2 $ make $ sudo mkdir -p /export/apps/nanopolish/0.10.2 $ sudo chown -R aorth:aorth /export/apps/nanopolish/0.10.2 $ cp -r bin docs nanopolish nanopolish_test scripts README.md LICENSE /export/apps/nanopolish/0.10.2 $ python3.6m -m venv /export/apps/nanopolish/0.10.2 $ source /export/apps/nanopolish/0.10.2/bin/activate $ pip3 install biopython pysam $ sudo chown -R root:root /export/apps/nanopolish/0.10.2
nanopolish-software.1542493230.txt.gz · Last modified: 2018/11/17 22:20 by aorth