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GitHub / fmalmeida / MpGAP
Multi-platform genome assembly pipeline for Illumina, Nanopore and PacBio reads
JSON API: https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/fmalmeida%2FMpGAP
Stars: 49
Forks: 10
Open Issues: 5
License: gpl-3.0
Language: Nextflow
Repo Size: 83.4 MB
Dependencies:
45
Created: almost 5 years ago
Updated: 3 months ago
Last pushed: 3 months ago
Last synced: 3 months ago
Topics: canu, flye, genome-assembly, hybrid-assemblies, illumina, nanopore, nextflow, pacbio, pilon, pipeline, polish, reproducible-research, reproducible-science, spades, unicycler, workflow
Files
Dependencies
- bcftools >=1.11
- blast 2.12.0.*
- bowtie2
- canu 2.2.*
- csvtk 0.23.0.*
- flye 2.9.*
- freebayes
- gcc
- haslr 0.8a1.*
- hdf5 1.10.*
- hdf5-static
- htslib
- mappy
- miniasm 0.3_r179.*
- minimap2 2.22.*
- multiqc 1.11.*
- mummer
- nanopolish 0.13.2.*
- numpy
- openssl
- pbgcpp 2.0.2.*
- pbmm2 1.7.0.*
- pilon 1.24.*
- pip
- python 3.6.*
- quast 5.0.2.*
- racon 1.4.20.*
- raven-assembler 1.6.1.*
- samtools >=1.11
- seqtk 1.3.*
- shovill 1.1.0.*
- spades 3.15.3.*
- tabix >=1.11
- unicycler 0.4.8.*
- zlib
- nfcore/base latest build