a Sequencing Quality Assessment Tool
☆16Jul 28, 2022Updated 4 years ago
Alternatives and similar repositories for SQUAT
Users that are interested in SQUAT are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- 🚝RAILS and 👞🔨Cobbler: Assembly Improvement by Long Sequence Scaffolding/Gap-filling☆27Apr 1, 2026Updated 5 months ago
- The Reproducible Programming in R course, developed by the School of Biodiversity, One Health and Veterinary Medicine at the University o…☆12Dec 20, 2022Updated 3 years ago
- This tool is for users to upgrade their metagenomics assemblies using long reads. This includes fixing mis-assemblies and scaffolding/gap…☆13Mar 17, 2016Updated 10 years ago
- Annotate Olfactory receptor CDS from genome☆11Apr 29, 2023Updated 3 years ago
- parallelLastz: Running Lastz in parallel☆18Sep 13, 2026Updated 2 weeks 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.
- Hagfish - assess an assembly through creative use of coverage plots☆37Aug 9, 2012Updated 14 years ago
- scripts to parse IrysView output☆11Jun 24, 2015Updated 11 years ago
- ☆12Sep 7, 2019Updated 7 years ago
- De-novo Assembly Structural Variant Caller☆13Sep 15, 2016Updated 10 years ago
- Calculate the dn/ds (also pn and ps) value of cds☆14Jul 11, 2020Updated 6 years ago
- The repository serves as a public and official hosting of the pSONIC program (Conover et al., 2021).☆21Sep 9, 2021Updated 5 years ago
- Workflows for correcting and scaffolding long-read (PacBio, nanopore) genome assemblies using optical mapping and/or Dovetail Hi-C data☆20Aug 18, 2020Updated 6 years ago
- The complete sequence of a Chinese individual☆14Oct 8, 2024Updated last year
- de novo targeted gene assembly☆22Apr 16, 2021Updated 5 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.
- Renames headers in FASTA file☆13Jun 28, 2017Updated 9 years ago
- A reliable gap filling pipeline for draft genomes☆11Sep 17, 2019Updated 7 years ago
- Reference genome quality scores☆20Dec 17, 2020Updated 5 years ago
- High throughput protein function annotation with Human Readable Description (HRDs) and Gene Ontology (GO) Terms.☆69Aug 16, 2023Updated 3 years ago
- A Circos-based tool to visualize genome assembly consistency or synteny between assemblies.☆98Nov 23, 2024Updated last year
- Figures for the CHM13 T2T SD paper.☆12Sep 12, 2021Updated 5 years ago
- Simple R script for plotting ideograms and annotating with bed files.☆13Sep 21, 2015Updated 11 years ago
- Benchmark MinION assembler pipelines and publish your results in a heartbeat!☆15Feb 11, 2020Updated 6 years ago
- Scaffolding with assembly likelihood optimization☆21Dec 14, 2020Updated 5 years ago
- 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.
- ☆12Feb 16, 2026Updated 7 months ago
- Tree reconstruction of ancestry using incomplete lineage sorting☆11Jan 9, 2026Updated 8 months ago
- This toolkit deals with GEnomic sequence and genome structure ANnotation files between inbreeding lines and species.☆45Aug 10, 2026Updated last month
- EXPERIMENTAL implementation of side graph☆10Apr 16, 2015Updated 11 years ago
- de Bruijn graph cOrrectiOn from graph aLignment☆11Jul 20, 2020Updated 6 years ago
- This is a basic repository with all the scripts necessary to reconstruct the data analysis from our work on the 200 Genomes☆12Aug 31, 2018Updated 8 years ago
- Fast-SG: An alignment-free algorithm for ultrafast scaffolding graph construction from short or long reads.☆23May 29, 2018Updated 8 years ago
- a toolset for efficient analysis of 10X Genomics linked read data sets, in particular for de novo assembly☆15Nov 27, 2019Updated 6 years ago
- Automated pipeline for enrichment analysis in non-model organisms !☆17Feb 8, 2026Updated 7 months ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Wrapper for short and long read mapping, creation of quality report(s) and estimation of genome size☆12Sep 30, 2025Updated 11 months ago
- CAMSA: a tool for Comparative Analysis and Merging of Scaffold Assemblies☆26Apr 13, 2020Updated 6 years ago
- Study of TE evolution in a population of genomes☆12Dec 11, 2023Updated 2 years ago
- General analysis of HiC data, including compartment A/B, domains and loops.☆14Feb 17, 2023Updated 3 years ago
- Tool (experimental) to compute layout from overlaps with spectral algorithm☆11Nov 28, 2017Updated 8 years ago
- Assembler for raw de novo genome assembly of long uncorrected reads.☆35Dec 11, 2019Updated 6 years ago
- Pipeline for Evaluating Prokaryotic References☆11Sep 16, 2016Updated 10 years ago