sudmantlab / loco-pipeLinks
loco-pipe is an automated Snakemake pipeline that streamlines a set of essential population genomic analyses for low-coverage whole genome sequencing (lcWGS) data
☆25Updated 2 months ago
Alternatives and similar repositories for loco-pipe
Users that are interested in loco-pipe are comparing it to the libraries listed below
Sorting:
- wgd v2: a suite of tools to uncover and date ancient polyploidy and whole-genome duplication☆37Updated 10 months ago
- A shiny application to visualize MCscan result☆38Updated 3 years ago
- Materials for genome annotation sessions at the WORKSHOP ON GENOMICS, CESKY KRUMLOV☆16Updated 11 months ago
- A python script for finding telomeric repeats (TTAGGG/CCCTAA) in FASTA files☆36Updated 3 years ago
- A quick user guide for de novo transposable element (TE) library generation and TE screening. Utilising; the Extensive de novo TE Annotat…☆27Updated 3 years ago
- Accompanying repository for our publications on manual curation methods for Transposable Elements.☆21Updated last year
- ☆35Updated 5 years ago
- Scripts to analyze data using TreeMix. This pipeline runs TreeMix with bootstrapping, helps choose number of migration events and creates…☆40Updated last year
- Quantifying Introgression via Branch Lengths☆55Updated 3 years ago
- Identification of transposable element families from pangenome polymorphisms☆54Updated 6 months ago
- GONE: Scripts, programs and an example data set☆48Updated 5 months ago
- Multi-genome synteny block visualization tool☆52Updated 2 months ago
- ☆53Updated 6 months ago
- A tool for evaluate long-read de novo assembly results☆48Updated last year
- Toolkit for evolutionary analyses of linkage groups☆33Updated last year
- Infer demographic history with the Moran model☆50Updated 6 months ago
- ☆41Updated 2 years ago
- Genome Annotation Pipeline☆42Updated last year
- Gapless provides combined scaffolding, gap-closing and assembly correction with long reads☆38Updated 2 years ago
- TSEBRA: Transcript Selector for BRAKER☆49Updated last month
- Assessing confidence in introgression among four populations☆27Updated 4 years ago
- Likelihood-based Selective Sweep Detection☆40Updated 2 years ago
- Graph-aware Retrieval of Selective Sweeps☆22Updated last year
- Framework for analyzing low depth NGS data in heterogeneous populations using PCA.☆56Updated 6 months ago
- SyntenyFinder contains a collection of scripts for performing and visualizing macrosynteny analyses. It supports annotated chromosome-lev…☆33Updated 11 months ago
- Leroy & Rougemont - “learning-by-doing” introduction to population genomics - scripts☆21Updated 6 years ago
- ☆26Updated 10 months ago
- G-PhoCS is a software package for inferring ancestral population sizes, population divergence times, and migration rates from individual …☆34Updated 4 years ago
- MCMCtreeR: A package to estimate distribution values for temporal node constraints and prepare input files for MCMCtree☆45Updated 6 years ago
- ☆22Updated 3 years ago