NCBI - National Center for Biotechnology Information/NLM/NIH

Repositories

pgap

NCBI Prokaryotic Genome Annotation Pipeline

Common Workflow Language 37 101 6 0 Updated Aug 7, 2020

ncbi-logging

Log monitoring and gathering infrastructure to feed analytics

C++ 1 1 0 0 Updated Aug 7, 2020

rapt

Shell 2 2 0 0 Updated Aug 7, 2020

cwl-ngs-workflows-cbb

A set of CWL tools and workflows used by NCBI Computational Biology Branch for NGS data analysis

ngs ngs-analysis ngs-pipeline cwl-workflow

Common Workflow Language 1 12 1 0 Updated Aug 7, 2020

sra-tools

SRA Tools

C 142 442 136 4 Updated Aug 7, 2020

amr

amr_finder

C++ 8 48 3 0 Updated Aug 4, 2020

cxx-toolkit

CSS 30 12 0 0 Updated Aug 4, 2020

ncbi-vdb

ncbi-vdb

C 24 64 12 0 Updated Aug 3, 2020

icn3d

WebGL-based protein structure viewer

webgl jupyter-notebook chemical protein snp nucleotide structure-viewer

JavaScript 21 48 0 0 Updated Aug 3, 2020

GapTools

dbGaP data validation tool repo

Shell 0 1 0 0 Updated Jul 29, 2020

datasets

NCBI Datasets is an experimental resource for finding and building datasets

3 20 0 0 Updated Jul 27, 2020

ncbi-oauth

OAuth 2 and JWT

1 1 0 0 Updated Jul 22, 2020

ngs-tools

C++ 15 53 10 2 Updated Jul 21, 2020

ngs

NGS Language Bindings

C++ 45 100 10 1 Updated Jul 21, 2020

ReadFinder

0 0 0 0 Updated Jul 20, 2020

magicblast

Python 6 19 7 0 Updated Jul 18, 2020

datadicer

JavaScript 0 2 0 3 Updated Jul 16, 2020

HYDROID

Python package for analyzing hydroxyl-radical footprinting experiments of DNA-protein complexes

bioinformatics structural-biology

Python 8 7 3 0 Updated Jul 15, 2020

docker

C++ 21 25 0 0 Updated Jul 9, 2020

blast_plus_docs

6 26 0 2 Updated Jul 7, 2020

cloud-transcriptome-annotation

Time and cost comparison on GCP and AWS for transcriptome annotation

aws jupyter-notebook gcp transcriptome-annotation

Jupyter Notebook 0 0 0 0 Updated Jul 1, 2020

ncbi-vdb3

3 0 0 0 Updated Jun 16, 2020

osiris

OSIRIS is a public domain quality assurance software package that facilitates the assessment of multiplex short tandem repeat (STR) DNA profiles based on laboratory-specific protocols. OSIRIS evaluates the raw electrophoresis data contained in .fsa or .hid files using an independently derived mathematically-based sizing algorithm. OSIRIS current…

C++ 19 11 0 0 Updated Jun 4, 2020

BAMscale

BAMscale is a one-step tool for either 1) quantifying and normalizing the coverage of peaks or 2) generated scaled BigWig files for easy visualization of commonly used DNA-seq capture based methods.

C 7 38 0 1 Updated Jun 2, 2020

pm4ngs

Project Manager for NGS data analysis

bioinformatics next-generation-sequencing rnaseq ngs-analysis ngs-pipeline cwl-workflow chipseq

Jupyter Notebook 0 7 0 0 Updated May 28, 2020

biomedical-citation-selector-trainer

Biomedical Citation Selector Trainer

Python 0 2 0 0 Updated May 27, 2020

biomedical-citation-selector

Python 3 3 0 0 Updated May 27, 2020

dcode-cape

C++ 4 0 0 0 Updated May 23, 2020

AptaSuite

Java GPL-3.0 0 0 0 1 Updated May 21, 2020

SKESA

SKESA assembler

C++ 8 54 6 1 Updated May 17, 2020