JackCurragh

omnipy

Omnipy is a high level Python library for type-driven data wrangling and scalable workflow orchestration (under development)

Auto-CORPus

Auto-CORPus pipeline developed by a University of Nottingham and Imperial College London collaboration to standardize text and table data extracted from full text publications. See Open Access publication at: https://doi.org/10.3389/fdgth.2022.788124.

iSeq

Download sequencing data and metadata from GSA, SRA, ENA, and DDBJ databases.

riboseq

Pipeline for the analysis of ribosome profiling, or Ribo-seq (also named ribosome footprinting) data.

genotate

Prokaryotic and phage genome annotation tool

easyTrackHubs

This package provides a function to reformat lists of genome coverage files, such as bigWig of bam files, into the directory structure of a UCSC Track Hub ready to be visualized in the genome browser. For details about it's use, please have a look at the vignette of the package.

nf-modules

Microbiome Informatics NF modules and sufworkflows

nextflow

A DSL for data-driven computational pipelines

genmap

GenMap - Fast and Exact Computation of Genome Mappability

awesome-etl

A curated list of awesome ETL frameworks, libraries, and software.

gtfsort

A chr/pos/feature GTF sorter that uses a lexicographically-based index ordering algorithm.

RiboCode

release version

seqera-kit

Python implementation and field-tool for automated pipeline launching through Tower CLI (beta)

nnn

n³ The unorthodox terminal file manager

scidataflow

Command line scientific data management tool

nf-shard

Nextflow runs monitoring and organisation UI

cramino

A *fast* tool for BAM/CRAM quality evaluation, intended for long reads

research_parasite

How research parasites can download your data!

bindPredict

Prediction of binding residues for metal ions, nucleic acids, and small molecules.

RiboDetector

Accurate and rapid RiboRNA sequences Detector based on deep learning

FlowSets

Analyse high-dimensional data in a longitudinal fashion and find similarly regulated sets of genes

higlass-docker

Builds a docker container wrapping higlass-server and higlass-client in nginx

riboseq_metadata

Ribo-seq metadata standardization for RiboCrypt and Riboseq.org

textual

The lean application framework for Python. Build sophisticated user interfaces with a simple Python API. Run your apps in the terminal and a web browser.

oxbow

Read specialized NGS formats as data frames in R, Python, and more.

PredictMEE

This repository provides code related to our manuscript describing the use of NLP to infer missing metadata in the SRA

Riboformer

MegaQC

Web application to collect and visualise data across multiple MultiQC runs.

BioDrop

Connect to your audience with a single link. Showcase the content you create and your projects in one place. Make it easier for people to find, follow and subscribe.

codehike

Marvellous code walkthroughs