Some useful gadgets
☆11Mar 14, 2022Updated 3 years ago
Alternatives and similar repositories for naughty_monkey
Users that are interested in naughty_monkey are comparing it to the libraries listed below
Sorting:
- Interspecies Point Projection - A tool for comparative genomics beyond alignable sequence☆23Feb 9, 2026Updated 3 weeks ago
- Tools for improving the sensitivity and specificity of genome alignments☆58Jan 17, 2024Updated 2 years ago
- ☆25Nov 29, 2022Updated 3 years ago
- Estimating gene family turnover rates by likelihood-based methods☆12Aug 17, 2020Updated 5 years ago
- read and analyse RepeatMasker output☆27May 22, 2023Updated 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 2 years ago
- A personal pipeline to calculate Ka,Ks and Ka/Ks using PAML-yn00 with YN method☆10Feb 26, 2025Updated last year
- Scripts for Wang et al (2020) Evidence for widespread selection in shaping the genomic landscape during speciation of Populus.☆11Feb 15, 2020Updated 6 years ago
- Quantifying Introgression via Branch Lengths☆56Sep 30, 2022Updated 3 years ago
- SyntenyFinder contains a collection of scripts for performing and visualizing macrosynteny analyses. It supports annotated chromosome-lev…☆35Jan 15, 2025Updated last year
- Scripts for Shi et al. (2024). The suer-pangenome of Populus unveils genomic facets for its adaptation and diversification in widespread …☆18Apr 1, 2024Updated last year
- Analyses of sex chromosome evolution in songbirds☆16Jun 15, 2019Updated 6 years ago
- Python script calculating transposable element density for all genes in a genome. Publication: https://mobilednajournal.biomedcentral.com…☆37Sep 30, 2024Updated last year
- Analyzing combinations of codon substitution histories☆46Updated this week
- Assemble and following pipeline used in wisent genome paper.☆17Dec 23, 2016Updated 9 years ago
- Reconstruction of ancestral genome maps☆16Mar 29, 2018Updated 7 years ago
- ☆16Dec 25, 2024Updated last year
- ☆16Nov 25, 2019Updated 6 years ago
- ☆16Jan 6, 2022Updated 4 years ago
- R package to draw syntenic plots in 3 different styles☆45Feb 2, 2026Updated last month
- This is used to call Codeml to calculate the positive selection of gene in Branch-Sites Model.(Require codon sequence)☆18Nov 18, 2021Updated 4 years ago
- D Frequency Spectrum: Signatures of introgression across the allele frequency spectrum☆19Sep 19, 2020Updated 5 years ago
- Simple tools for working with Hi-C data☆18Dec 19, 2018Updated 7 years ago
- The repository serves as a public and official hosting of the pSONIC program (Conover et al., 2021).☆21Sep 9, 2021Updated 4 years ago
- Methods and recipes for Plant Genome Annotation - Transposable Elements☆20Jun 10, 2025Updated 8 months ago
- Extract longest transcript or longest CDS transcript from GTF annotation file or gencode transcripts fasta file.☆21Mar 25, 2022Updated 3 years ago
- scripts☆20Nov 2, 2018Updated 7 years ago
- Centromics: visualing centromeres with multiple omics data☆21Jan 18, 2024Updated 2 years ago
- CAAStools is a bioinformatics toolbox that allows the user to identify and validate CAAS on MSA of orthologous proteins.☆23Nov 21, 2023Updated 2 years ago
- BITACORA: A Bioinformatics tool for gene family annotation☆53Dec 10, 2025Updated 2 months ago
- Infering ancestral synteny with hierarchical orthologous groups☆38Oct 17, 2025Updated 4 months ago
- A visualization tool for studying chromosomal rearrangements through interactive synteny block analysis and chromosome breakpoint mapping…☆11Jan 28, 2026Updated last month
- Identification of conserved non-coding sequences in plants☆32Feb 4, 2026Updated last month
- A pipeline to de novo assemble the stLFR reads using Supernova Assembler☆20Feb 22, 2023Updated 3 years ago
- Genome-Genome circle synteny☆25Dec 1, 2023Updated 2 years ago
- Centromics: visualing centromeres with multiple omics data☆25Mar 4, 2025Updated last year
- ☆26Jan 26, 2026Updated last month
- SCORPiOs is a synteny-guided gene tree correction pipeline for clades that have undergone a whole-genome duplication event.☆24Sep 23, 2024Updated last year
- CALDER is a Hi-C analysis tool that allows: (1) compute chromatin domains from whole chromosome contacts; (2) derive their non-linear hie…☆26Apr 16, 2025Updated 10 months ago