encode-dcc Goto Github PK

accession

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

atac-seq-pipeline

ENCODE ATAC-seq pipeline

atac-seq-pipeline-test-data

Test data for ENCODE atac-seq-pipeline

autouri

Recursive localization for various types of URIs

aws-genomics-workflows

Genomics Workflows on AWS

bigwig-reader

Typescript library for reading BigWig and BigBed files.

bioconda-recipes

Conda recipes for the bioconda channel.

bismark-encode-wgbs

DNANexus Whole Genome Bisulphite Analysis Pipeline

caper

Cromwell/WDL wrapper for Python

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.

chip-seq-pipeline

ENCODE Uniform processing pipeline for ChIP-seq

chip-seq-pipeline-test-data

Test data for ENCODE chip-seq-pipeline

chip-seq-pipeline2

ENCODE ChIP-seq pipeline

chromhmm-pipeline

WDL pipeline for chromhmm

coalesce_s3_log_glue_spark

Glue pyspark job to combine s3 access logs to parquet

codespace-testing

correlation_robustness

cromwell

Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments

croo

Cromwell output organizer

cvdjango

Repository to try out Django in the implementation of controlled vocabulary and experimental meta-data

d3-sequence-logo

Sequence Logo generation in d3.js

dac_submissions

Scripts to support data and metadata submissions from the DAC

dagre-d3

A D3-based renderer for Dagre

dalliance

Interactive web-based genome browser.

dccmetadataimport

Tables of metadata to import to the DCC.

demo-pipeline

devservers-encoded

Encoded application development server deployment

dna-me-pipeline

DCC/DAC methylation pipeline source

dna-nexus-collaboration

ENCODE-DNANexus collaboration

dnase-seq-pipeline

ENCODE DNase-seq pipeline