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Addition of the README and the CHANGELOG
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workflows/VGP-assembly-v2/Assembly-Hifi-only-VGP3/CHANGELOG.md
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# Changelog | ||
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All notable changes to this project will be documented in this file. | ||
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The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/), | ||
and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html). | ||
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## [Unreleased] | ||
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## [0.1] - 2023-09-26 | ||
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Addition of the workflow to the iwc repository. |
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workflows/VGP-assembly-v2/Assembly-Hifi-only-VGP3/README.md
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## Contiging Solo w/HiC: | ||
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Generate phased assembly based on PacBio Hifi Reads using HiC data from the same individual for phasing. | ||
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### Inputs | ||
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1. Hifi long reads [fastq] | ||
2. HiC forward reads (if multiple input files, concatenated in same order as reverse reads) [fastq] | ||
3. HiC reverse reads (if multiple input files, concatenated in same order as forward reads) [fastq] | ||
4. K-mer database [meryldb] | ||
5. Genome profile summary generated by Genomescope [txt] | ||
6. Name of first assembly | ||
7. Name of second assembly | ||
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### Outputs | ||
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1. Haplotype 1 assembly | ||
2. Haplotype 2 assembly | ||
3. QC: BUSCO report for both assemblies | ||
4. QC: Merqury report for both assemblies | ||
5. QC: Assembly statistics for both assemblies | ||
6. QC: Nx plot for both assemblies | ||
7. QC: Size plot for both assemblie | ||
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