wjian8 / psvcp_v1.01View external linksLinks
Pan-genome Construction and Population Structure Variation Calling pipeline
☆45Sep 13, 2024Updated last year
Alternatives and similar repositories for psvcp_v1.01
Users that are interested in psvcp_v1.01 are comparing it to the libraries listed below
Sorting:
- Automated Rice Variant calling workflow for HPC, Cloud and Desktop systems.☆13May 11, 2024Updated last year
- tomato graph pangenome☆87Dec 13, 2022Updated 3 years ago
- ☆44May 8, 2024Updated last year
- Bash scripts and data used in pantranscriptomic paper☆24Oct 21, 2022Updated 3 years ago
- A program to generate a graph which presents a simplified representation of several full length genomes☆13Aug 23, 2018Updated 7 years ago
- MODAS: Multi-Omics Data Association Study toolkit☆21Nov 21, 2024Updated last year
- Integrate multiple genome assemblies into a pangenome graph☆35Jun 9, 2022Updated 3 years ago
- Set of script for the paper on the cattle graph genome☆13Jan 10, 2023Updated 3 years ago
- ☆14Feb 22, 2022Updated 3 years ago
- Show pangenome graphs in an easy way☆58Aug 7, 2025Updated 6 months ago
- This repository contains relevant code and explanation for ”Leveraging a phased pangenome to design ideal haplotypes for hybrid potato br…☆34Oct 29, 2025Updated 3 months ago
- ☆17Nov 26, 2023Updated 2 years ago
- Scripts used to perform analyses in Rice et al. (2023)☆16Dec 28, 2023Updated 2 years ago
- A pipeline for genomic variant detection with genome assemblies at population scale☆36Jun 3, 2025Updated 8 months ago
- Whole Genome Annotation Pipeline☆16Jun 20, 2025Updated 7 months ago
- Tools for working with agp files☆19Jun 26, 2025Updated 7 months ago
- CATG (Collinearity-based Assembly correcTor GUI) is a tool that can correct genome assembly with collinearity and generate tour files for…☆17Jan 24, 2026Updated 3 weeks ago
- Code for assembly approach presented in "Haplotype-resolved assembly of a tetraploid potato genome using long reads and low-depth offspri…☆14Nov 20, 2023Updated 2 years ago
- Haplotype aware de novo assembly of diploid genome from long reads☆54Mar 16, 2022Updated 3 years ago
- A nextflow pipeline for polishing CLR assemblies☆18Feb 3, 2023Updated 3 years ago
- Project description and analytic scripts for cis/trans regulation of fiber development in G. hirsutum☆17Dec 19, 2023Updated 2 years ago
- Phylogenetic Analysis of Long Terminal Repeat Retrotransposons☆18Oct 4, 2022Updated 3 years ago
- a programme for visualization of short sequence alignment and path navigation in graphical pan-genome☆26Jan 23, 2024Updated 2 years ago
- A genome annotation pipeline that use short and long sequencing reads alignments from animal genomes☆30Apr 10, 2024Updated last year
- A Plant Presence/absence Variants Scanner and Pan-genome Construction Pipeline☆28May 24, 2021Updated 4 years ago
- Scripting analyses of genomes in Ensembl Plants☆42Jan 1, 2026Updated last month
- VCF2Dis: an ultra-fast and efficient tool to calculate pairwise genetic distance and construct population phylogeny from VCF files☆53Aug 27, 2025Updated 5 months ago
- Long-read aligner to pangenome graphs☆29May 20, 2024Updated last year
- Method for inferring path posterior probabilities and abundances from pangenome graph read alignments☆59Sep 6, 2025Updated 5 months ago
- pangenome from maximal blocks in an MSA☆11Sep 17, 2024Updated last year
- GeneMiner: a tool for extracting phylogenetic markers from next-generation sequencing data☆12Feb 22, 2024Updated last year
- ☆10Jan 27, 2025Updated last year
- Finding patch of conserved amino acid sites in 3D structure☆13Apr 13, 2025Updated 10 months ago
- A rapid and accurate ensemble pipeline for graph-based variant genotyping with lower depth of short reads☆49Sep 22, 2025Updated 4 months ago
- Resistify is a program which rapidly identifies and classifies plant resistance genes from protein sequences. It is designed to be lightw…☆41Feb 9, 2026Updated last week
- This is the Haplotypo repository☆22May 24, 2024Updated last year
- Code to compute the XP-CLR statistic to infer natural selection☆102Jun 13, 2022Updated 3 years ago
- High-precision TE Annotator☆150Dec 4, 2025Updated 2 months ago
- Application of pan-genome for population☆116Oct 26, 2025Updated 3 months ago