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r-bedmatrix
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public |
A matrix-like data structure that allows for efficient, convenient, and scalable subsetting of binary genotype/phenotype files generated by PLINK (<https://www.cog-genomics.org/plink2>), the whole genome association analysis toolset, without loading the entire file into memory.
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2025-03-25 |
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r-crochet
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public |
Functions to help implement the extraction / subsetting / indexing function '[' and replacement function '[<-' of custom matrix-like types (based on S3, S4, etc.), modeled as closely to the base matrix class as possible (with tests to prove it).
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2025-03-25 |
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gz-sort
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public |
No Summary
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2025-03-25 |
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gmrm
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public |
A Bayesian grouped mixture of regressions model capable of estimating SNP marker effect sizes for multiple outcomes simultaneously
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2025-03-25 |
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r-ngslca
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public |
Provides functionality for processing lca files generated by the 'ngsLCA' main program <https://github.com/miwipe/ngsLCA> and visualizing taxonomic profiles.
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2025-03-25 |
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qmihr
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public |
No Summary
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2025-03-25 |
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r-bhr
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public |
More about what it does (maybe more than one line) Use four spaces when indenting paragraphs within the Description.
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2025-03-25 |
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r-sdmpredictors
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public |
Terrestrial and marine predictors for species distribution modelling from multiple sources, including WorldClim <https://www.worldclim.org/>,, ENVIREM <https://envirem.github.io/>, Bio-ORACLE <https://bio-oracle.org/> and MARSPEC <http://www.marspec.org/>.
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2025-03-25 |
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r-ldheatmap
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public |
Produces a graphical display, as a heat map, of measures of pairwise linkage disequilibria between single nucleotide polymorphisms (SNPs). Users may optionally include the physical locations or genetic map distances of each SNP on the plot. The methods are described in Shin et al. (2006) <doi:10.18637/jss.v016.c03>. Users should note that the imported package 'snpStats' and the suggested packages 'rtracklayer', 'GenomicRanges', 'GenomInfoDb' and 'IRanges' are all BioConductor packages <https://bioconductor.org>.
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2025-03-25 |
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r-terra
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public |
Methods for spatial data analysis with raster and vector data. Raster methods allow for low-level data manipulation as well as high-level global, local, zonal, and focal computation. The predict and interpolate methods facilitate the use of regression type (interpolation, machine learning) models for spatial prediction, including with satellite remote sensing data. Processing of very large files is supported. See the manual and tutorials on <https://rspatial.org/terra/> to get started. 'terra' is very similar to the 'raster' package; but 'terra' can do more, is simpler to use, and it is faster.
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2025-03-25 |
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gdk-mvapich2
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public |
MPI implementation for GenomeDK
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2025-03-25 |
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somalier
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public |
No Summary
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2025-03-25 |
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gdk-mpich-mpifort
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public |
A high performance widely portable implementation of the MPI standard.
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2025-03-25 |
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gdk-mpich-mpicxx
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public |
A high performance widely portable implementation of the MPI standard.
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2025-03-25 |
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gdk-mpich-mpicc
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public |
A high performance widely portable implementation of the MPI standard.
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2025-03-25 |
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gdk-mpich
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public |
A high performance widely portable implementation of the MPI standard.
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2025-03-25 |
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r-genomicsem
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public |
Later
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2025-03-25 |
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py-mixer
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public |
No Summary
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2025-03-25 |
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msmc2
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public |
This program implements MSMC2, a method to infer population size history and population separation history from whole genome sequencing data.
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2025-03-25 |
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k-mers-gwas
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public |
No Summary
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2025-03-25 |
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maftools
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public |
mafTools is a collection of tools that operate on Multiple Alignment Format (maf) files.
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2025-03-25 |
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pinchesandcacti
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public |
This is a library for creating pinch graphs (generalised overlap graphs) and cactus graphs.
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2025-03-25 |
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asset-dfguan
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public |
Assembly evaluation tool
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2025-03-25 |
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gromacs
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public |
GROMACS is a versatile package to perform molecular dynamics.
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2025-03-25 |
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quicktest
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public |
Methods for testing association between uncertain genotypes and quantitative traits
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2025-03-25 |
