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amriss

Scripts for the analysis of Antimicrobial Resistance (AMR) at International Space Station (ISS) surface microbiomes

ansible-role-solr

Ansible Role - Apache Solr

bioconda-recipes

Conda recipes for the bioconda channel.

bioconductor-ci-validator

Bioconductor package validator via Continuous Integration

bioinformatics-pipeline-tutorial

A tutorial on how to create bioinformatics pipelines as bash scripts, Makefiles and using tools like Nextflow.

bioinformatics-training-collection

Collection of bioinformatics training materials

bioinformatics-workflows

minimal example implementations for bioinformatics workflow managers

bivariate-genomic-footprinting

Scripts to run footprinting and motif-flanking accessibility analysis in DNase-seq/ ATAC-seq data

cellranger-vdj

V(D)J T Cell and B Cell Analysis with cellranger vdj

cexor

An R package to uncover high-resolution protein-DNA interactions in ChIP-exo replicates

chiadrop

Scripts for ChIA-drop data analysis

chip-exo

ChIP-exo data analysis in R

diffngs

diffNGS: differential peak analysis in Next-Generation Sequencing data with replicates

dosymetric-image-reconstruction

Reconstructing dosimetric images using a deconvoluted physical model

endoderm

Definitive endoderm differentiation of human ESCs in G1 phase of the cell cycle

fccac

Bioconductor package - functional Canonical Correlation Analysis to evaluate Covariance between nucleic acid sequencing datasets

fccac_biorxiv

functional Canonical Correlation Analysis to evaluate Covariability between nucleic acid sequencing datasets

fccac_legacy

Legacy version of R package fCCAC - before submission to Bioconductor

jenkins-pipeline-examples

A collection of examples, tips and tricks and snippets of scripting for the Jenkins Pipeline plugin

json-validate

JSON validator in bash

kltepigenome

Uncovering correlated variability in epigenomic datasets using the Karhunen-Loeve Transform

lncrna-genelab-atlas

Detection of long non-coding RNAs (lncRNAs) during Spaceflight using RNA-seq data

mams

Matrix and Analysis Metadata Standards

nemerip-seq

Scripts for neMeRIP-seq data analysis

nextflow_september_2021

patterns

A curated collection of Nextflow implementation patterns -- http://nextflow-io.github.io/patterns/index.html

randomforest

A simple example of a Random-Forest classifier

rnacentral-webinar

Jupyter notebooks to run interactive parts of the RNAcentral webinar

sc-lymphomagenesis

A single-cell atlas of lymphoma evolution

scatlas_ontology

SCA_Ontology