ahvigil Goto Github PK

ahvigil.github.io

bamutil

basespace-downloader

A simple command line utility for downloading run/project files stored on Illumina's BaseSpace platform

celery

Distributed Task Queue (development branch)

cpython

The Python programming language

demonfire

DICOM image registration and segmentation project using VTK

featur

R utilities for dealing with FEATURE data

forcebalance

Systematic force field optimization.

hadoop_demo

A basic word count demo put together to demo the Cloudera Quickstart VM

homebrew-cask

A CLI workflow for the administration of Mac applications distributed as binaries

incubator-airflow

Apache Airflow (Incubating)

ipython

Official repository for IPython itself. Other repos in the IPython organization contain things like the website, documentation builds, etc.

kombu

Messaging library for Python.

leaves

Tools for looking at Random Forests and other tree based modeling approaches

modules

Repository to host tool-specific module files for the Nextflow DSL2 community!

multiqc

Aggregate results from bioinformatics analyses across many samples into a single report.

ncls

The Nested Containment List for Python. Basically a static interval-tree that is silly fast for both construction and lookups.

nextflow

A DSL for data-driven computational pipelines

nf-aggregate

Pipeline to aggregate pertinent metrics across pipeline runs on the Seqera Platform (beta)

nf-test

Simple test framework for Nextflow pipelines

oauth2

Go OAuth2

pandr

R compatible pandas dataframe serialization

poetry

Python packaging and dependency management made easy

pysam

Pysam is a Python module for reading and manipulating SAM/BAM/VCF/BCF files. It's a lightweight wrapper of the htslib C-API, the same one that powers samtools, bcftools, and tabix.

pytest-workflow

Configure workflow/pipeline tests using yaml files.

randomforest

Classification and regression based on a forest of trees using random inputs.

rfcv

Cross validation code for random forest

rosalind

Code written to solve the problems at rosalind.info (work in progress)

ruptures

ruptures: change point detection in Python

scandir

Better directory iterator and faster os.walk(), now in the Python 3.5 stdlib