A collection of snakemake scripts to streamline genome annotation
☆14Mar 24, 2026Updated 6 months ago
Alternatives and similar repositories for genome_assembly_pipelines
Users that are interested in genome_assembly_pipelines are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Segmental duplication detection tool☆15Feb 7, 2023Updated 3 years ago
- Phylogenomic species tree inference under gene duplication and loss☆13Sep 20, 2026Updated last month
- Automated pipeline for whole bacterial genome analysis based on snakemake☆12May 16, 2022Updated 4 years ago
- scripts to parse and analyse MCScanX collinearity output☆32Mar 3, 2020Updated 6 years ago
- Sorting and subsampling phylogenomic datasets☆35Apr 9, 2025Updated last year
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- A script that parses the OrthoFinder output and keeps only the orthogroups that meet specific criteria☆19Oct 14, 2020Updated 6 years ago
- SYNPHONI is a tool designed for reconstructing the dynamic evolution of syntenic relationships across all scales of phylogenetic distance…☆12May 7, 2023Updated 3 years ago
- Code for TAD_SV project☆11Mar 16, 2022Updated 4 years ago
- Helper Perl scripts and tree files associated with the EukProt database of genome-scale eukaryotic protein sequence data sets.☆14Nov 30, 2023Updated 2 years ago
- The repository for codes developed to generated the Maize NC358 assemblies and analyses.☆10Apr 23, 2020Updated 6 years ago
- MCMCtreeR: A package to estimate distribution values for temporal node constraints and prepare input files for MCMCtree☆46Nov 21, 2019Updated 6 years ago
- A simple script to run an alignment with nucmer and visualise its results.☆10Apr 17, 2023Updated 3 years ago
- Daily usage script recording☆12Sep 23, 2026Updated 3 weeks ago
- Reduce genome assembly redundancy using shared mapped k-mer method.☆15Apr 28, 2025Updated last year
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Visualising discordant reads☆16Sep 2, 2015Updated 11 years ago
- A genome-scale, fast, and precise segmental duplications mapping tool☆36Sep 11, 2024Updated 2 years ago
- Method used in the study on germline mutation rate estimation in 68 species of vertebrates.☆17Oct 11, 2021Updated 5 years ago
- SyntenyFinder contains a collection of scripts for performing and visualizing macrosynteny analyses. It supports annotated chromosome-lev…☆35Jan 15, 2025Updated last year
- Utilities for downloading and managing protein FASTA files.☆14Mar 20, 2024Updated 2 years ago
- From the comparison of two extant genomes and corresponding gene families, PhylDiag detects conserved segments, i.e. segments of chromoso…☆15Aug 7, 2023Updated 3 years ago
- R package for comparison of synteny conservation at the genome-wide scale.☆17Jun 6, 2024Updated 2 years ago
- Gennome annotation scripts for the crickets Gryllus bimaculatus and Laupala kohalensis.☆14Feb 28, 2022Updated 4 years ago
- a tool to evaluate long-read error correction mainly with PacBio High-Fidelity Reads (HiFi reads).☆20Dec 5, 2023Updated 2 years ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Paired REad TEXTure Mapper. Converts SAM formatted read pairs into genome contact maps.☆28Jul 15, 2026Updated 3 months ago
- OrthoFiller: Identifying missing annotations for evolutionarily conserved genes.☆25Dec 1, 2022Updated 3 years ago
- CAAStools is a bioinformatics toolbox that allows the user to identify and validate CAAS on MSA of orthologous proteins.☆26Nov 21, 2023Updated 2 years ago
- ☆13Apr 7, 2023Updated 3 years ago
- Pipelines for the production of Treeval data☆31Oct 14, 2026Updated last week
- oxford dot plots☆176Sep 20, 2026Updated last month
- ☆15Nov 25, 2019Updated 6 years ago
- Analyses of sex chromosome evolution in songbirds☆18Jun 15, 2019Updated 7 years ago
- ☆38Sep 3, 2025Updated last year
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- FFT cross-correlation based synteny aligner, (re)designed to make full use of parallel computing☆45Dec 21, 2021Updated 4 years ago
- Characterization of Structural Variation in Chinese samples☆17Dec 22, 2021Updated 4 years ago
- Pauvre: QC and genome browser plotting Oxford Nanopore and PacBio long reads.☆55Nov 9, 2024Updated last year
- Fork of the KaKs_Calculator2.0 project https://sourceforge.net/projects/kakscalculator2☆14Jul 22, 2026Updated 2 months ago
- Analysis of convergence between organismal traits and DNA/protein sequences☆71Sep 17, 2026Updated last month
- Subset of fast5 files contained in a fastq, BAM, or SAM file.☆12Mar 29, 2023Updated 3 years ago
- ☆15Aug 6, 2025Updated last year