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100-days-of-ml-code

100 Days of ML Coding

2019bio.script.test

come on！

asexual-lineage-adaptation

Matlab code for simulations and inference of DFE (distribution of fitness effects) described in "The fates of mutant lineages and the distribution of fitness effects of beneficial mutations in laboratory budding yeast populations" EM Frenkel, BH Good, MM Desai. Genetics, 2014

atlas

ATLAS - Three commands to start analysing your metagenome data

bwa-mem2

The next version of bwa-mem (WIP; not recommended for production uses at the moment)

circos

learning

clif

Wrapper generator foundation to wrap C++ for Python and other languages using LLVM.

corvusdfe

Distribution of fitness effects of several species in the genus Corvus

cv

My pagedown rendered CV

deepvariant

DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

delly

DELLY2: Structural variant discovery by integrated paired-end and split-read analysis

denovotargetcapturepopgen

Bioinformatics pipelines for processing transciptome-based exon capture data in population genomic analyses

devtools

Tools to make an R developer's life easier

discvrseq

A collection of command line tools for working with sequencing data

docs

Source repository for https://docs.qiime2.org

egap

External memory BWT and LCP computation for sequence collections with applications [WABI'18]

enhancedvolcano

Publication-ready volcano plots with enhanced colouring and labeling

ergatis

Ergatis is a web-based utility that is used to create, run, and monitor reusable computational analysis pipelines.

fasconcat-g

FASconCAT-G offers a wide range of possibilities to edit and concatenate multiple nucleotide, amino acid, and structure sequence alignment files for phylogenetic and population genetic purposes. The main options include sequence renaming, file format conversion, sequence translation, consensus generation of predefined sequence blocks, and RY coding as well as site exclusions in nucleotide sequences. FASconCAT-G implemented process options can be invoked in any combination and performed during a single process run. FASconCAT-G can also read in and handle different file formats (FASTA, CLUSTAL, and PHYLIP) in a single run.

feast

Fast expectation maximization for microbial source tracking

ffpopsim

FFPopSim is a collection of C++ classes and a Python interface for efficient simulation of large populations, in particular when the product of mutation rate and population size is larger than one. It consists of one library for individual-based simulations, and a complementary one for simulation of the entire genotype distribution. The latter is coded efficiently using Fast-Fourier Transforms to speed up recombination operations.

fuck-xuexiqiangguo

学习强国 懒人刷分工具 自动学习

gatk

Official code repository for GATK versions 4 and up

gcp-variant-transforms

GCP Variant Transforms

ggbiplot

A biplot based on ggplot2

gmap-gsnap

*UNOFFICIAL, UNMAINTAINED and OUTDATED*: This was an unofficial archive of GMAP-GSNAP releases. Please use the original website for current versions of the source code.

gqt

A genotype query interface.

gwa_tutorial

A comprehensive tutorial about GWAS and PRS

hapdenovo

intervene

Intervene: a tool for intersection and visualization of multiple genomic region and gene sets