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Last pushed: 3 months ago
Short Description
Kart: A divide-and-conquer algorithm for NGS read mapping with high error tolerance
Full Description

To run Kart:

docker run -v /data:/data hsinnan/kart -i /data/IndexPrefix -f /data/read_1.fq -f2 /data/read_2.fq -o /data/out.sam

To run Kart with pre-made index files

  1. sudo docker run -name hg19 hsinnan/hg19 (download the hg19 index, default path is /index/ref)
  2. sudo docker run -v /data:/data --volumes-from hg19 hsinnan/kart -i /index/ref -f /data/read1.fq -f2 /data/read2.fq -o /data/out.sam (run read alignment with the hg19 index)
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Owner
hsinnan