Purdue University

Kmc is a tool for efficient k-mer counting and filtering of reads based on k-mer content.

KmerGenie estimates the best k-mer length for genome de novo assembly.

KneadData is a tool designed to perform quality control on metagenomic and metatranscriptomic sequencing data, especially data from microbiome experiments. In these experiments, samples are typically taken from a host in hopes of learning something about the microbial community on the host.

Kover is an out-of-core implementation of rule-based machine learning algorithms that has been tailored for genomic biomarker discovery.

Kraken2 is the newest version of Kraken, a taxonomic classification system using exact k-mer matches to achieve high accuracy and fast classification speeds. This classifier matches each k-mer within a query sequence to the lowest common ancestor (LCA) of all genomes containing the given k-mer.

KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files.

Lambda is a local aligner optimized for many query sequences and searches in protein space.

LAMMPS stands for Large-scale Atomic/Molecular Massively Parallel Simulator and is a classical molecular dynamics MD code.

LAPACK version 3.X is a comprehensive FORTRAN library that does linear algebra operations including matrix inversions, least squared solutions to linear sets of equations, eigenvector analysis, singular value decomposition, etc. It is a very comprehensive and reputable package that has found extensive use in the scientific community.

Last is used to find & align related regions of sequences.

pairwise DNA sequence aligner

Framework for running large collections of serial or multi-threaded applications.

LDhat is a package written in the C and C++ languages for the analysis of recombination rates from population genetic data.

LDJump is an R package to estimate variable recombination rates from population genetic data.

ldsc is a command line tool for estimating heritability and genetic correlation from GWAS summary statistics.

The learning module loads the prerequisites (such as anaconda and cudnn ) and makes ML applications visible to the user.

libflame is a portable library for dense matrix computations, providing much of the functionality present in LAPACK, developed by current and former members of the Science of High-Performance Computing SHPC group in the Institute for Computational Engineering and Sciences at The University of Texas at Austin. libflame includes a compatibility layer, lapack2flame, which includes a complete LAPACK implementation.

libFLAME AMD Optimized version is a portable library for dense matrix computations, providing much of the functionality present in Linear Algebra Package LAPACK. It includes a compatibility layer, FLAPACK, which includes complete LAPACK implementation.

GNU libiconv provides an implementation of the iconv function and the iconv program for character set conversion.

The libMesh library provides a framework for the numerical simulation of partial differential equations using arbitrary unstructured discretizations on serial and parallel platforms.