Phyling: phylogenetic inference from annotated genomes
☆30Jan 30, 2026Updated last month
Alternatives and similar repositories for Phyling
Users that are interested in Phyling are comparing it to the libraries listed below
Sorting:
- A software for gap filling in genome assemblies☆10Aug 12, 2022Updated 3 years ago
- Working with the outputs of sourmash in R☆28Jan 15, 2026Updated last month
- hs-blastn, a fast and accurate nucleotide-nucleotide sequences aligner.☆27Aug 12, 2020Updated 5 years ago
- ☆57Feb 18, 2026Updated 2 weeks ago
- Reference bias measuring toolkit☆20Apr 18, 2025Updated 10 months ago
- TGSFilter: An ultra-fast and efficient tool for long reads filtering and trimming☆26May 18, 2024Updated last year
- your friendly pangenome graph genotyper☆10Feb 6, 2023Updated 3 years ago
- Scaffolding with assembly likelihood optimization☆21Dec 14, 2020Updated 5 years ago
- An R package to perform systematic quality checks on comparative genomics analyses☆12Jan 12, 2024Updated 2 years ago
- STRIDE: Species Tree Root Inference from Gene Duplication Events☆11Aug 28, 2018Updated 7 years ago
- ☆15May 22, 2025Updated 9 months ago
- pretrained LookingGlass language model for biological read-length DNA sequences, and related models derived from transfer learning☆15Feb 19, 2026Updated 2 weeks ago
- ViromeScan allows the user to explore and taxonomically characterize the virome from metagenomic reads, efficiently denoising samples fro…☆13Feb 13, 2023Updated 3 years ago
- A barcode demultiplexer for Oxford Nanopore long-read amplicon sequencing data☆10Nov 27, 2024Updated last year
- EPSAPG: An Extensive Protein Sequence Alignment Profiles Generator Pipeline Combining MMseqs2 and PSI-BLAST☆11Apr 4, 2024Updated last year
- Foreign Contamination Screening caller scripts and documentation☆159Mar 18, 2025Updated 11 months ago
- Eukaryotic Genome Annotation Pipeline☆382Feb 12, 2026Updated 3 weeks ago
- ALignment Transformation EnviRonment☆11May 8, 2018Updated 7 years ago
- Whole organelle genome-wide alignment construction method, which ultilizes BLAST tool, to facilitate phylogeny analysis☆15Aug 27, 2023Updated 2 years ago
- nf-core/phyloplace is a bioinformatics best-practice analysis pipeline that performs phylogenetic placement with EPA-NG.☆12Nov 20, 2025Updated 3 months ago
- QuickProt: A Fast and Accurate Homology-Based Protein Annotation Tool for Non-Model Organisms to Advance Comparative Genomics☆16Jan 12, 2026Updated last month
- Microbial agile accurate SNP Typer☆30Dec 27, 2023Updated 2 years ago
- Quality assessment of de novo transcriptome assemblies from RNA-Seq data☆26Nov 14, 2025Updated 3 months ago
- Convert Tandem Repeat Finder dat file output into gff3 format☆30Nov 9, 2025Updated 3 months ago
- A tool for visualization of pairwise alignments of multiple sequences☆17Aug 12, 2025Updated 6 months ago
- High throughput tool for tall and wide multiple sequence alignment.☆26Feb 10, 2026Updated 3 weeks ago
- a simple tool for listing conda environments with descriptions☆14Mar 28, 2025Updated 11 months ago
- Quartet-based species tree and tree of blob estimation☆14Feb 10, 2026Updated 3 weeks ago
- Gene copy number prediction from k-mer frequencies☆15Jul 29, 2024Updated last year
- SV genotyper for long reads with a variation graph☆15Aug 11, 2025Updated 6 months ago
- A collection of easy-to-use custom ggplot2-based functions for data exploration and analysis. Each function handles data preprocessing an…☆24Dec 23, 2025Updated 2 months ago
- Robust identification of orthologous Synteny with the Orthology Index☆39Updated this week
- codoff: a program to measure the irregularity of the codon usage for a single genomic region (e.g. a BGC, prophage, etc.) relative to the…☆13Jan 19, 2026Updated last month
- Iterative error correction of long reads☆13Dec 9, 2022Updated 3 years ago
- Primer design from single genes to whole gene families for unlocking the tree of life☆16Jun 4, 2025Updated 9 months ago
- An R package designed for drawing gene arrow maps☆96Sep 29, 2025Updated 5 months ago
- Strain resolver for metagenomics☆80Aug 2, 2024Updated last year
- T2Tools is a toolset contains several tools for T2T assembly, and it is under development.☆15Sep 17, 2025Updated 5 months ago
- snapper☆13Jul 8, 2024Updated last year