Multiple genomes read count
Project description
spcount
This package is used to map short reads to multiple genomes with perfect match and report only once for each category.
Prerequisites
Install bowtie
BOWTIE_VERSION="1.2.3"
cd ~; \
wget https://github.com/BenLangmead/bowtie/releases/download/v${BOWTIE_VERSION}/bowtie-${BOWTIE_VERSION}-linux-x86_64.zip; \
unzip bowtie-${BOWTIE_VERSION}-linux-x86_64.zip; \
rm bowtie-${BOWTIE_VERSION}-linux-x86_64.zip
export PATH=$PATH:~/bowtie-${BOWTIE_VERSION}-linux-x86_64
Installation
Install python main package
pip install spcount
Or you can install from github directly
pip install git+git://github.com/shengqh/spcount.git
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spcount-0.0.6.tar.gz
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