edg1983

GREEN-VARAN

Annotate non-coding regulatory vars using our GREEN-DB, prediction scores, conservation and pop AF

WGS_pipeline

oneliners

Useful bash one-liners for bioinformatics.

Awesome-Bioinformatics

A curated list of awesome Bioinformatics libraries and software.

gene-set-enrichment

Simple gene-set enrichment analysis using hyper-geometric test

NF_HPO_prioritize

Nextflow pipeline for HPO-based prioritization (GADO and Exomiser)

sqlite-shiny

Shiny app to interact with SQLite DB

SV_annotation

Annotate SV VCF based on regions overlap

DesktopDeployR

A framework for deploying self-contained R-based applications to the desktop

GEL_import

Repository to conveniently import small files into GEL environment

github-ci

An example GitHub Action (CI) to build a Singularity container

HTML_playground

Templates for HTML pages

hts-nim

nim wrapper for htslib for parsing genomics data files

misc_tools

Miscellaneous tools and useful scripts

nf-website

Nextflow public web site

NF_variant_annotation

Nextflow variant annotation pipeline

nim-argparse

Argument parsing for Nim

nim_VCF2sql

convert VCF files to SQL db using Nim language

obonet

OBO-formatted ontologies → networkx (Python 3)

packages

List of packages for Nimble

PanelApp_tools

Simple class to interact with PanelApp API

pyCore

core functions and classes for Python

quick_classify

A simple NN classifier to classify numeric data

RStudio_server_singularity

Run Rstudio-server with singularity instance

Singularity_images

singularity recipes for bioinformatic analysis

SV_intersect

Perform intersection on a SV cohort and compute case / control counts

SV_utils

Small utilities used in our SV pipeline

Variant_explorer

Shiny app to explore and filter annotated variants results from V2

VCF_QC_report

Small R utilities to generate QC report for small variants VCF

VCF_toolbox

Small set of utility we use to manipulate VCF, written in nim for speed