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pypolca container

Main tool: pypolca

Code repository:

Additional tools:

  • samtools: 1.19
  • vcftools: 0.1.16
  • bwa: 0.7.17-r1188
  • freebayes: 1.3.7

Basic information on how to use this tool:

  • executable: pypolca
  • help: pypolca -h
  • version: pypolca -v
  • description: Polished long-read assemblies with Illumina reads

pypolca is a Standalone Python re-implementation of the POLCA polisher from the MaSuRCA genome assembly and analysis toolkit.

Full documentation: https://github.com/rrwick/Polypolish

Example Usage

pypolca run -a assembly.fasta -1 R1.fastq.gz -2 R2.fastq.gz -t 4 -o output