IMAP_perl

IMAP_perl is a Perl script part of the Integrative Meta-Assembly Pipeline (IMAP) software package. The IMAP pipeline is designed to generate chromosome-level genome sequence assemblies using only short-read sequencing data. It combines the strengths of reference-guided and meta-assembly approaches to improve the continuity and accuracy of the genome assembly.

The IMAP_perl script is included in the IMAP package to help users install the necessary prerequisite programs and dependencies required for running the IMAP pipeline. By executing the IMAP_perl script, users can easily set up the IMAP pipeline on their systems without manually installing each component.

Topic

Sequence assembly;Mapping;Whole genome sequencing

Detail

  • Operation: Genome assembly;De-novo assembly;Mapping assembly

  • Software interface: Command-line user interface

  • Language: Shell,C++,Perl

  • License: Not stated

  • Cost: Free of charge

  • Version name: -

  • Credit: Pusan National University, National Research Foundation of Korea, Ministry of Science and ICT of Korea, and Ministry of Education of Korea.

  • Input: -

  • Output: -

  • Contact: Jaebum Kim jbkim@konkuk.ac.kr

  • Collection: -

  • Maturity: -

Publications

  • Integrative Meta-Assembly Pipeline (IMAP): Chromosome-level genome assembler combining multiple de novo assemblies.
  • Song G, et al. Integrative Meta-Assembly Pipeline (IMAP): Chromosome-level genome assembler combining multiple de novo assemblies. Integrative Meta-Assembly Pipeline (IMAP): Chromosome-level genome assembler combining multiple de novo assemblies. 2019; 14:e0221858. doi: 10.1371/journal.pone.0221858
  • https://doi.org/10.1371/JOURNAL.PONE.0221858
  • PMID: 31454399
  • PMC: PMC6711525

Download and documentation

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