A series of perl and python scripts for generating genotypes from NGS fastq files from GTseq library sequencing.
☆21Jun 14, 2022Updated 3 years ago
Alternatives and similar repositories for GTseq-Pipeline
Users that are interested in GTseq-Pipeline are comparing it to the libraries listed below
Sorting:
- Pipeline for GTseq genotyping and quality control☆15Jan 30, 2023Updated 3 years ago
- Mycobacterium tuberculosis next generation sequence analysis☆24Oct 11, 2019Updated 6 years ago
- WinPCA. A package for windowed principal component analysis.☆46Feb 26, 2026Updated last week
- A package for population structure inference from RAD-seq data☆34May 14, 2021Updated 4 years ago
- MTBseq is an automated pipeline for mapping, variant calling and detection of resistance mediating and phylogenetic variants from illumin…☆47Sep 8, 2025Updated 5 months ago
- Scripts☆10Jun 29, 2016Updated 9 years ago
- Analysis tool for Nanopore sequencing data☆11Apr 26, 2024Updated last year
- Bioinformatics / Explore oligonucleotide composition similarity between assembly contigs or scaffolds to detect contaminant DNA.☆12Feb 27, 2019Updated 7 years ago
- ☆11Dec 1, 2020Updated 5 years ago
- Detects and blacklists paralog RAD loci analyzed in Stacks or ipyrad, based on the McKinney 2017 method (doi:10.1111/1755-0998.12613)☆10Sep 4, 2019Updated 6 years ago
- pySCM: The Set Covering Machine in Python☆14Apr 18, 2025Updated 10 months ago
- A repository for my work on rCRUX☆12Jun 21, 2024Updated last year
- Software for hybridization capture bait design☆11Mar 20, 2024Updated last year
- efficient sampling for close-kin mark recapture power estimation☆15Jun 26, 2025Updated 8 months ago
- Obsolete!! Begin to turn to PrimerServer2☆10Jul 22, 2019Updated 6 years ago
- Distance denoise by Entropy☆15Oct 17, 2025Updated 4 months ago
- Variant Calling and Postfiltering☆11Jan 9, 2017Updated 9 years ago
- Fast RNAseq pipeline☆10Mar 17, 2023Updated 2 years ago
- Pipeline for transcriptome de novo assembly☆12Mar 1, 2018Updated 8 years ago
- ☆10Nov 15, 2024Updated last year
- long-read depth breaking☆11Apr 19, 2018Updated 7 years ago
- ☆12Jul 21, 2025Updated 7 months ago
- ☆14Feb 9, 2026Updated 3 weeks ago
- Script for removing or counting invariant sites for the RAxML ascertainment bias corrections☆16Oct 12, 2024Updated last year
- Development of an accurate, inexpensive DIY CMM arm☆24May 4, 2020Updated 5 years ago
- Inference of population structure from time-series genotype data☆15Jul 9, 2019Updated 6 years ago
- Accurate quality filtering of metagenomic amplicon sequences☆12Aug 26, 2019Updated 6 years ago
- Conversations about teaching computational skills to undergraduates☆12Sep 22, 2021Updated 4 years ago
- A birth-death-hybridization based phylogenetic network simulator.☆11Oct 2, 2024Updated last year
- edit distance sequence tags and helpers☆12Feb 4, 2021Updated 5 years ago
- An R package to detect selection in biological pathways☆14Jan 19, 2024Updated 2 years ago
- A toolbox for C++ devs wanting to build geospatial population genetics simulators !☆11May 4, 2025Updated 10 months ago
- An R function to compute Concordance Factors from SNP datasets☆15Dec 4, 2025Updated 3 months ago
- Analyze a set of genomes with the anvi'o pangenome pipeline☆16Oct 11, 2023Updated 2 years ago
- CROP: Clustering 16s rRNA for OTU Prediction☆13May 2, 2017Updated 8 years ago
- Quick exercices to learn Rust☆12Apr 18, 2018Updated 7 years ago
- Simulation package for getting gene tree distributions and loci / SNPs from input tree topologies and migration / Ne scenarios. Wraps aro…☆14Apr 20, 2024Updated last year
- Copy number variation detection using NGS data.☆19Oct 26, 2023Updated 2 years ago
- ☆18May 27, 2022Updated 3 years ago