POLCA 3.4.2

Owned by Amanda Cooksey (Unlicensed)
Nov 18, 2021
1 min read

Quick Start

  • POLCA is a polishing tool aimed at improving the consensus accuracy in genome assemblies produced from long high error sequencing data generated by PacBio SMRT or Oxford Nanopore sequencing technologies. POLCA utilizes Illumina or PacBio HIFI reads for the same genome for improving the consensus quality of the assembly.

Test Data

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Test data for this app appears directly in the Discovery Environment in the Data window under Community Data -> iplantcollaborative -> example_data -> POLCA

Input File(s)

  • Use these files for test run:
    Reference.fasta
  • Illumina_R1.fastq.gz
  • Illumina_R2.fastq.gz

Output Files

This app generates the polished genome and a VCF file with the variants called from the read data, along with many files used in the analysis.

Tool Source for App

https://github.com/alekseyzimin/masurca