This repository saves Train/Test datasets used for training of ESKAPEE classification work and classification results publicly available at: https://www.techrxiv.org/doi/full/10.36227/techrxiv.21675053.v5
Find structured-datasets from within the Sequence Read Archive
Simple Private Set Intersection implemented in pure Go.
Automated and customizable preprocessing of Next-Generation Sequencing data, including full (sc)ATAC-seq, ChIP-seq, and (sc)RNA-seq workflows. Works equally easy with public as local data.
Introduction to bioinformatics command line tools on the cloud, developed by Dartmouth College
Reproducible discovery and review of Drosophila brain functional genomics datasets from GEO, SRA, and PubMed.
Independent project I undertook to perform a full ChIP-Seq analysis of the transcription factor Nanog in Zebrafish embryos.
R functions for querying Sean Davis' omicidx system
A Bash script for downloading sequencing data from the NCBI SRA database.
GEfetch2R - Access Single-cell/Bulk RNA-seq Data from Public Repositories and Benchmark the Subsequent Format Conversion Tools
Python wrapper created to help download metagenomic data from SRA or ENA databases
Proof of concept of a SRA to trimmed FASTQ (including quality control) pipeline with Nextflow
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