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
Alternatives and similar repositories for callCodeml
Users that are interested in callCodeml are comparing it to the libraries listed below
Sorting:
- ☆15Jul 21, 2022Updated 3 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
- Annotate Olfactory receptor CDS from genome☆10Apr 29, 2023Updated 2 years ago
- The complete sequence of a Chinese individual☆11Oct 8, 2024Updated last year
- Inferring natural selection by comparative population genomic analysis across species☆26Oct 31, 2023Updated 2 years ago
- SyntenyFinder contains a collection of scripts for performing and visualizing macrosynteny analyses. It supports annotated chromosome-lev…☆35Jan 15, 2025Updated last year
- Figures for the CHM13 T2T SD paper.☆10Sep 12, 2021Updated 4 years ago
- Genome alignment and synteny plots☆33Jun 5, 2023Updated 2 years ago
- ☆16Apr 3, 2023Updated 2 years ago
- PhyloAln: a convenient reference-based tool to align sequences and high-throughput reads for phylogeny and evolution in the omic era☆17Nov 28, 2025Updated 3 months ago
- Convergent substitution detection tool based on the PCOC model☆31Dec 2, 2021Updated 4 years ago
- ☆16Dec 25, 2024Updated last year
- Python package for detecting positive selective sweeps using time-series genomics sampling data.☆19Apr 9, 2024Updated last year
- An ultra-fast and efficient tool for high frequency kmer sequencing reads extraction☆19Mar 6, 2024Updated last year
- ☆17Nov 9, 2020Updated 5 years ago
- MCMCtreeR: A package to estimate distribution values for temporal node constraints and prepare input files for MCMCtree☆45Nov 21, 2019Updated 6 years ago
- ☆18Jan 29, 2025Updated last year
- A tool for performing collinearity-incorporating homology inference☆33Oct 7, 2023Updated 2 years ago
- Convert RepeatMasker ".out" file into a gff3 with colors!!!☆24Aug 20, 2020Updated 5 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
- Gene Family Annotation Workflow☆11Mar 26, 2024Updated last year
- ☆24Apr 22, 2025Updated 10 months ago
- Telomere local assembly, Improved whole genome polish, and Plastid assembly☆22Apr 25, 2025Updated 10 months ago
- Identification of conserved non-coding sequences in plants☆32Feb 4, 2026Updated 3 weeks ago
- This pipeline is used to distinguish allotetraploid subgenomes.☆11Apr 8, 2024Updated last year
- PhyloForge: Unifying micro and macro evolution with comprehensive genomic signals☆10May 17, 2024Updated last year
- Strand and WGD aware syntenic gene identification☆15Oct 16, 2025Updated 4 months ago
- ☆41Jun 8, 2023Updated 2 years ago
- R package to draw syntenic plots in 3 different styles☆45Feb 2, 2026Updated last month
- Methods for finding associations between phenotypic and genomic differences between species using the Forward Genomics framework☆24Nov 29, 2022Updated 3 years ago
- ☆26Jan 26, 2026Updated last month
- SCORPiOs is a synteny-guided gene tree correction pipeline for clades that have undergone a whole-genome duplication event.☆23Sep 23, 2024Updated last year
- An R package to perform systematic quality checks on comparative genomics analyses☆12Jan 12, 2024Updated 2 years ago
- Calculate the dn/ds (also pn and ps) value of cds☆13Jul 11, 2020Updated 5 years ago
- Pipeline for homeobox gene identification☆11Aug 8, 2023Updated 2 years ago
- Tree reconstruction of ancestry using incomplete lineage sorting☆11Jan 9, 2026Updated last month
- A filter algorithm with program to filter an alignment or mapping file☆12May 15, 2025Updated 9 months ago
- Plotting average TAD heatmap for Hi-C data (give TAD segmentation and cool/hiclib interactions map).☆10Jun 5, 2021Updated 4 years ago
- Phylogenetic profiling with orthology data☆13Oct 10, 2025Updated 4 months ago