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jsgtest

junctionseq

The JunctionSeq R package is a powerful tool for testing differential junction usage (DJU) in next-generation, high-throughput RNA-Seq experiments.

jvarkit

Java utilities for NGS

kablammo

BLAST results visualization tool

kableextra

Construct Complex Table with knitr::kable() + pipe

kallisto

Near-optimal RNA-Seq quantification

kapow

:bomb: Seamless variable assignment from R objects :boom:

karyoploter

karyoploteR - An R/Bioconductor package to plot arbitrary data along the genome

karyotype-reconstruction

An ILP based algorithm to reconstruct karyotypes, and a karyotype simulator. The algorithm is described in the manuscript bioRxiv 152447; doi: https://doi.org/10.1101/152447

kataegisportal

katex

Fast math typesetting for the web.

kipoi

Kipoi's model zoo API

krakenhll

KrakenHLL metagenomics classification method with unique k-mer counting for more specific results

krona

Interactively explore metagenomes and more from a web browser.

labs

Scripts for the PH525x: Data Analysis for Genomics

lancet

Microassembly based somatic variant caller for NGS data

laser

Locating Ancestry from SEquence Reads

ld-annot

Practical program to annotate candidate polymorphism using annotations for genes in genetic linkage in the specific experiment.

ldblockshow

LDBlockShow: a fast and convenient tool for visualizing linkage disequilibrium and haplotype blocks based on VCF files

ldsc

LD Score Regression (LDSC)

leafcutter

LeafCutter: Annotation-free quantification of RNA splicing. Yang I Li, David A Knowles, Jonathan K Pritchard.

learnxinyminutes-docs

Code documentation written as code! How novel and totally my idea!

lemon

🍊 Lemon --- Freshing up your ggplots

lichee

Multi-sample cancer phylogeny reconstruction

linpe

linsight

lists

The definitive list of lists (of lists) curated on GitHub

littler

A scripting and command-line front-end for GNU R

locuscompare

LocusCompare is an interactive visualization tool for comparing two genetic association datasets.

locusexplorer

An interactive graphical illustration of genetic associations and their biological context