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nft-bam

nft-bam is an nf-test plugin to make working with SAM, BAM or CRAM files easier.

Start using the plugin

To start using the plugin please add it to your nf-test.config file:

nf-test.config
config {
    plugins {
        load "nft-bam@0.3.0"
    }
}

Have a look at the usage documentation for more information on how to start working with the plugin.

Use a development version

To use the development version, please do the following steps:

git clone git@github.com:nvnieuwk/nft-bam.git

git clone https://github.com/nvnieuwk/nft-bam.git
  • Run the build script
./build.sh
  • Add the jar location (visible at the end of the build script output) to the nf-test.config file
nf-test.config
config {
    plugins {
        loadFromFile "full/path/to/the/plugin/jar"
    }
}