Paired REad TEXTure Mapper. Converts SAM formatted read pairs into genome contact maps.
☆28Jul 15, 2026Updated 3 weeks ago
Alternatives and similar repositories for PretextMap
Users that are interested in PretextMap are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- OpenGL Powered Pretext Contact Map Viewer☆63Jul 17, 2026Updated 3 weeks ago
- PhaseGrass, a reference-based phasing workflow generating chromosome-level haplotype-resolved diploid assembly for highly heterozygous ge…☆17Jun 2, 2026Updated 2 months ago
- Pipeline for genome scaffolding by modelling distributions of HiC pairs☆12Dec 7, 2022Updated 3 years ago
- assembly evaluation tool☆35May 11, 2022Updated 4 years ago
- Genome Assembly Validation via Inter-SUNK distances in ONT reads☆16Feb 20, 2023Updated 3 years ago
- 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.
- Unzip assembly graphs with Hi-C data and/or long reads.☆29May 7, 2026Updated 3 months ago
- ☆16Apr 9, 2021Updated 5 years ago
- Evaluating genome assemblies☆125Mar 3, 2026Updated 5 months ago
- Official repo for the standalone package of Coding Potential Calculator (CPC) 2.☆32Sep 11, 2021Updated 4 years ago
- TGSFilter: An ultra-fast and efficient tool for long reads filtering and trimming☆27May 18, 2024Updated 2 years ago
- A genomic k-mer counter (and sequence utility) with nice features.☆184Jul 21, 2026Updated 2 weeks ago
- Nextflow pipeline for genome annotation of protein-coding genes☆16Dec 21, 2023Updated 2 years ago
- FastK based version of Merqury☆33Jan 19, 2026Updated 6 months ago
- recompute GFA link overlaps☆26Sep 14, 2022Updated 3 years ago
- 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.
- ☆10Jun 9, 2020Updated 6 years ago
- Pipelines for the production of Treeval data☆31Updated this week
- Reference-free profiling of polyploid genomes☆145Oct 2, 2025Updated 10 months ago
- GALBA is a pipeline for fully automated prediction of protein coding gene structures with AUGUSTUS in novel eukaryotic genomes for the sc…☆149Apr 13, 2026Updated 3 months ago
- Extracting paths from assembly graphs☆24Jun 22, 2026Updated last month
- ☆17Jun 15, 2026Updated last month
- Identify and find telomeres, or telomeric repeats in a genome.☆173Nov 24, 2025Updated 8 months ago
- Transformer-based sequence correction method for genome assembly polishing☆107Mar 11, 2025Updated last year
- Mapping pipeline for data generated using Arima-HiC☆85May 22, 2024Updated 2 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.☆38Apr 23, 2025Updated last year
- 🚀 LiftOn: Accurate annotation mapping for GFF/GTF across assemblies☆125Updated this week
- ☆18Jan 29, 2025Updated last year
- A framework for extracting telomeric reads from single-molecule sequencing experiments, describing their sequence variation and motifs, a…☆16Jan 25, 2024Updated 2 years ago
- HiC-Hiker: A probabilistic model to determine contig orientation in chromosome-length scaffolds with Hi-C☆26Jan 14, 2021Updated 5 years ago
- ☆13Nov 15, 2017Updated 8 years ago
- Gap2Seq is a gap filling and insertion genotyping tool.☆22Aug 12, 2024Updated last year
- A single fast and exhaustive tool for summary statistics and simultaneous *fa* (fasta, fastq, gfa [.gz]) genome assembly file manipulatio…☆129Jun 18, 2026Updated last month
- Repeat-aware polishing genomes assembled using HiFi long reads☆105Apr 7, 2026Updated 4 months ago
- 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.
- Generation of OrthoDB protein sets for gene prediction experiments☆11Aug 8, 2024Updated 2 years ago
- ☆37Feb 22, 2023Updated 3 years ago
- Everything but the kitchen sink☆13Feb 6, 2025Updated last year
- Some components that speed up and reduce resource cost for original ALLHiC☆15Jun 21, 2025Updated last year
- Close assembly gaps using long-reads at high accuracy.☆52Feb 20, 2024Updated 2 years ago
- Find, circularise and annotate mitogenome from PacBio assemblies☆199May 11, 2025Updated last year
- PanEffect is a JavaScript framework to explore variant effects across a pangenome. The tool has two views that allows a user to (1) expl…☆13Jan 30, 2024Updated 2 years ago