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Databio Lab

Username    databio
Date joined   Joined on

24 projects

refgenieserver

Last released on

This server provides both a web interface and a RESTful API. Users may explore and download archived indexes from the web interface or develop tools that programmatically query the API.

refgenie

Last released on

Refgenie creates a standardized folder structure for reference genome files and indexes. You can download pre-built genomes or build your own for any fasta file

refgenconf

Last released on

A standardized configuration object for reference genome assemblies

yacman

Last released on

A standardized configuration object for reference genome assemblies

ubiquerg

Last released on

Various utility functions

refget

Last released on

Python client for refget

henge

Last released on

Storage and retrieval of object-derived, decomposable recursive unique identifiers.

bbconf

Last released on

Configuration package for bedbase project

eido

Last released on

A project metadata validator

looper

Last released on

A pipeline submission engine that parses sample inputs and submits pipelines for each sample.

peppy

Last released on

A python-based project metadata manager for portable encapsulated projects

geofetch

Last released on

Downloads data and metadata from GEO and SRA and creates standard PEPs.

bedshift

Last released on

BED file perturbations

divvy

Last released on

A python-based configuration manager for portable environment configurations

bulker

Last released on

A manager for containerized executables

logmuse

Last released on

Logging setup

loopercli

Last released on

A pipeline submission engine that parses sample inputs and submits pipelines for each sample.

caravel

Last released on

Caravel provides aweb interface to interact with your PEP-formatted projects. Caravel lets you submit jobs to any cluster resource manager, monitor jobs, summarize results, and browse project summary web pages.

lucidoc

Last released on

API documentation in Markdown

attmap

Last released on

Multiple access patterns for key-value reference

veracitools

Last released on

Testing utilities

piper

Last released on

A lightweight python toolkit for gluing together restartable, robust command line pipelines

pararead

Last released on

Parallel processing of sequencing reads

ngstk

Last released on

Next-generation sequencing utility functions

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