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CheckQC inspects the content of an Illumina runfolder and determines if it passes a set of quality criteria
Download FASTQ files from SRA or ENA repositories.
A Python package for obtaining complete lineages and the lowest common ancestor (LCA) from a set of taxonomic identifiers
a command line tool for viral proteomic tree generation, part of the ViPTree project: http://www.genome.jp/viptree
Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!
Share of the SQuirreL SQL source code originating from SourceForge, see https://squirrelsql.org
A tool to normalize CryoET data by matching amplitude spectrums.
Pipeline for the automatic detection and segmentation of particles and cellular structures in 3D Cryo-ET data, based on deep learning (convolutional neural networks).
Annotation Pipeline for TrEMBL, UniProt, and KEGG
Image-processing software for cryo-electron microscopy
A pipeline that ingests SARS-CoV-2 (i.e. nCoV) data from GISAID and Genbank, transforms it, stores it on S3, and triggers Nextstrain nCoV rebuilds.
ArtiaX is an open-source extension of the molecular visualisation program ChimeraX.
Source code for molecular graphics program UCSF ChimeraX
Ontology of bioimage informatics operations, topics, types of data, and data formats. EDAM-Bioimaging is an extension of the EDAM ontology (edamontology.org) dedicated to bioimaging data analysis, …
FROGS is a galaxy/CLI workflow designed to produce an OTUs count matrix from high depth sequencing amplicon data.