ENCODE DCC

Repositories

dagre-d3

Forked from dagrejs/dagre-d3

A D3-based renderer for Dagre

JavaScript MIT 495 1 0 1 Updated Aug 5, 2020

ptools

Pipeline to convert bams into pbams

Python MIT 1 0 0 0 Updated Aug 5, 2020

encoded

Metadata database for ENCODE project

Python MIT 43 84 0 31 Updated Aug 5, 2020

valis-hpgv

Forked from VALIS-software/valis-hpgv

High performance WebGL genome visualization

TypeScript BSD-3-Clause 3 1 0 2 Updated Aug 4, 2020

accession

Python module to upload experiment files and metadata to the ENCODE Portal

Python MIT 0 1 0 2 Updated Aug 4, 2020

snovault

The SnoVault general purpose hybrid object-relational database

Python MIT 12 10 1 11 Updated Aug 4, 2020

caper

Cromwell/WDL wrapper for Python

Python MIT 4 14 4 0 Updated Aug 4, 2020

rna-seq-pipeline

Python MIT 28 52 0 0 Updated Aug 4, 2020

pyencoded-tools

Jupyter Notebook MIT 13 7 0 5 Updated Jul 31, 2020

wgbs-pipeline

ENCODE whole-genome bisulfite sequencing (WGBS) pipeline

bioinformatics pipeline ngs methylation wgbs

Python MIT 4 3 0 0 Updated Jul 31, 2020

checkfiles

Files are checked to see if the MD5 sum (both for gzipped and ungzipped) is identical to the submitted metadata, as well as run through the validateFiles program from jksrc.

Python MIT 1 0 0 2 Updated Jul 30, 2020

dna-me-pipeline

DCC/DAC methylation pipeline source

Perl MIT 21 29 0 1 Updated Jul 29, 2020

segway-pipeline

Python MIT 0 0 0 0 Updated Jul 29, 2020

hic-pipeline

HiC uniform processing pipeline

wdl MIT 7 8 0 0 Updated Jul 27, 2020

dnase-seq-pipeline

ENCODE DNase-seq pipeline

wdl MIT 1 1 0 0 Updated Jul 23, 2020

bioconda-recipes

Forked from bioconda/bioconda-recipes

Conda recipes for the bioconda channel.

Shell 1,537 0 0 0 Updated Jul 23, 2020

encValData

AngelScript MIT 5 3 0 0 Updated Jul 23, 2020

atac-seq-pipeline

ENCODE ATAC-seq pipeline

Python MIT 94 144 8 2 Updated Jul 23, 2020

chip-seq-pipeline2

ENCODE ChIP-seq pipeline

Python MIT 65 107 9 1 Updated Jul 23, 2020

gcs-s3-transfer-service

A Flask service on Google App Engine to upload files from Google Cloud Storage to AWS S3

Python MIT 0 0 0 0 Updated Jul 21, 2020

qc2tsv

Converts multiple QC objects (JSON/TSV/CSV) into a spreadsheet

Python MIT 0 1 0 0 Updated Jul 20, 2020

long-read-rna-pipeline

ENCODE long read RNA-seq pipeline

wdl MIT 3 11 0 0 Updated Jul 10, 2020

regulome-encoded

Temp repo for regulome development

Python MIT 0 0 1 6 Updated Jul 8, 2020

qc-utils

QC infrastructure common to several pipelines

Python MIT 0 0 0 0 Updated Jun 23, 2020

mirna-seq-pipeline

wdl MIT 3 2 0 0 Updated Jun 22, 2020

chromhmm-pipeline

WDL pipeline for chromhmm

wdl MIT 0 0 0 0 Updated May 16, 2020

demo-pipeline

Python MIT 9 9 2 0 Updated May 11, 2020

croo

Cromwell output organizer

Python MIT 2 5 2 0 Updated Apr 23, 2020

autouri

Recursive localization for various types of URIs

Python MIT 0 0 0 0 Updated Apr 20, 2020

correlation_robustness

Python MIT 0 0 0 3 Updated Mar 30, 2020