| ################################################################################# | |
| # INSTALL MAMBA ON GOOGLE COLAB | |
| ################################################################################# | |
| ! wget -O miniconda.sh https://repo.anaconda.com/miniconda/Miniconda3-py37_4.10.3-Linux-x86_64.sh | |
| ! chmod +x miniconda.sh | |
| ! bash ./miniconda.sh -b -f -p /usr/local | |
| ! rm miniconda.sh | |
| ! conda config --add channels conda-forge | |
| ! conda install -y mamba | |
| ! mamba update -qy --all |
SAM and BAM filtering one-liners
@author: David Fredman, [email protected] (sans poly-A tail)
@dependencies: http://sourceforge.net/projects/bamtools/ and http://samtools.sourceforge.net/
Please extend with additional/faster/better solutions via a pull request!
BWA mapping (using piping for minimal disk I/O)