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2clike_analysis

Some of the mapping and normalization scripts used in our NCB paper PMID:31209294

bpipe_workshop

bpipe workshop

chromtime

Modeling Spatio-temporal Dynamics of Chromatin Marks

d3.svg.multibrush

A version of d3.svg.brush that supports multiple extents

dalliance

Interactive web-based genome browser.

destiny

This is a read-only mirror of the Bioconductor SVN repository. Package Homepage: http://bioconductor.org/packages/devel/bioc/html/destiny.html Bug Reports: https://support.bioconductor.org/p/new/post/?tag_val=destiny.

dl_genomics_example

feast

Fast expectation maximization for microbial source tracking

figr

Functional Inference of Gene Regulation

gb_paper_scripts

ggpicrust2

Make Picrust2 Output Analysis and Visualization Easier

goagent

a gae proxy

hic-3dviewer

hic3dviewer

an interactive webbased tool for the interactive 3D visualization and exploratory analysis of Hi-C data.

hic_tools

A collection of tools for Hi-C data analysis

hmmdomaincaller

An HMM-based domain caller from bw

hotspot

Hotspot is a program for identifying genomic regions of local enrichment of short-read sequence tags.

imp

The Integrative Modeling Platform

impulsede2

kableextra

Construct Complex Table with knitr::kable() + pipe.

loomr

An R-based interface for loom files

metagenomeseq

This is a read-only mirror of the Bioconductor SVN repository. Package Homepage: http://bioconductor.org/packages/devel/bioc/html/metagenomeSeq.html Contributions: https://github.com/nosson/metagenomeSeq/. Bug Reports: https://support.bioconductor.org/p/new/post/?tag_val=metagenomeSeq or https://github.com/nosson/metagenomeSeq/issues.

metamos

A metagenomic assembly pipeline for AMOS

methylkit

R package for DNA methylation analysis

microbiotaprocess

:microbe: A comprehensive R package for deep mining microbiome

notebookprimer

The interactive ROOT Primer based on Jupyter notebooks

origami

Statistical Modeling of ChIA-PET interactions

orolab

pastis

Poisson-based algorithm for stable inference of DNA Structure

pydnase

Python module for the easy handling and analysis of DNase-seq data