Blue Collar Bioinformatics (@bcbio)
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bcbio

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  • Stars
    star
    1,162
  • Global Org. Rank 13,880 (Top 5 %)
  • Registered about 9 years ago
  • Most used languages
    Python
         35.7 %
    HTML
         14.3 %
    Common Workflow Language     14.3 %
    R
         14.3 %
    Clojure
         7.1 %
    Shell
         7.1 %
    Dockerfile
         7.1 %

Top repositories

1

bcbio-nextgen

Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis
Python
991
star
2

bcbio-nextgen-vm

Run bcbio-nextgen genomic sequencing analyses using isolated containers and virtual machines
Python
65
star
3

bcbio_validations

Validation runs using bcbio: germline, somatic, structural variant calling and RNA-seq analyses
HTML
31
star
4

bcbio.variation.recall

Parallel merging, squaring off and ensemble calling for genomic variants
Clojure
20
star
5

bcbio_validation_workflows

A community menagarie of automated variant validations using bcbio and the Common Workflow Language
Common Workflow Language
20
star
6

bcbio.github.io

Blue Collar Bioinformatics website
HTML
9
star
7

bcbio_docker

Automated Docker builds for bcbio
Dockerfile
7
star
8

test_bcbio_cwl

Test workflows, run scripts and data for bcbio Common Workflow Language integration
Common Workflow Language
7
star
9

icr142-validation

Preparation scripts and bcbio integration for the ICR142 NGS validation series
Python
4
star
10

bcbio-utils

Helper scripts for bcbio-nextgen
Python
3
star
11

bcbioR

R package with well defined templates for most common pipelines
R
2
star
12

bcbio-dnanexus-wrapper

Repository to hold wrapper apps for bcbio CWL on DNAnexus
Shell
2
star
13

bcbio_rnaseq_output_example

example of bcbio RNAseq output to test bcbioRnaseq R package
R
1
star
14

hivdrm

Detect HIV Drug Resitant Mutations using amplicon sequencing data
Python
1
star