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kmerdecoder

Extract kmers, skipmers, minimizers.

kseq_reader

A threadsafe + buffered fastq/fasta reading wrapper, based on kseq.h from Heng Li

kseqpp

Fast FASTA/Q parser and writer (C++ re-implementation of kseq library)

launchair

A small python utility which can execute a list of commands in parallel

libcluster

An extensible C++ library of Hierarchical Bayesian clustering algorithms, such as Bayesian Gaussian mixture models, variational Dirichlet processes, Gaussian latent Dirichlet allocation and more.

libvcfh

A small library for generating VCF headers

lru_cache

A thread-safe LRU cache implementation in C++

lumpy-sv

lumpy: a general probabilistic framework for structural variant discovery

maf_to_bed

Convert a maf file to a bed file to use with BEDtools.

maftools

:cancer: Summarize, Analyze and Visualize MAF files from TCGA or in house studies.

manubot-rootstock

Clone me to create your manuscript

mash

Fast genome and metagenome distance estimation using MinHash

minigraph

Proof-of-concept seq-to-graph mapper and graph generator

minimap2

A versatile pairwise aligner for genomic and spliced nucleotide sequences

mirna_distributions

Scripts and code pertaining to "Human microRNAs Exhibit Two Distributions Within and Across Cancer Samples"

mkat-bamreader

Fork of bamreader (from Meerkat) which actually compiles.

mkat-bwa-0.6.2

A (patched, ancient) BWA version for meerkat

mkat-dre

A version of meerkat's dre that compiles.

mkat-mybamtools

A modified version of the mybamtools library that actually compiles.

mkat-sclust

A compilable version of meerkat's sclust

mkmh

Generate kmers/minimizers/hashes/MinHash signatures, including with multiple kmer sizes.

modimizer

a toolset for fast DNA read set matching and assembly using a new type of reduced kmer

momafft

mpakt

A small template-based library for binary I/O of C++ primitives and arrays.

murmur3

Murmur3 hash in C

musica

MuSiCa - Mutational Signatures in Cancer

mutation-signatures

Create mutation signatures from MAF's, and decompose them into Stratton signatures

ngs

NGS Language Bindings

nim-kmer

DNA kmer operations for nim

notipyer

Notification Triggers for Python