472 Open source projects that are alternatives of or similar to cell-ontology

Chanjo provides a better way to analyze coverage data in clinical sequencing.

Bystro genetic analysis (annotation, filtering, statistics)

Environmental DNA metabarcoding taxonomic identification

The Go Language Implementation of Ontology Actor Model

InterARTIC - An interactive local web application for viral whole genome sequencing utilising the artic network pipelines..

Provide R access to the NCI Genomic Data Commons portal.

Reference-based transcript discovery from long RNA read

Automatically exported from code.google.com/p/ogms

Clustering scRNAseq by genotypes

📓Notebook of Climente-González et al. (2017), The Functional Impact of Alternative Splicing in Cancer.

A proof of concept of RNAseq pipeline

echt rapid variant annotation and filtering

Fast alignment and preprocessing of chromatin profiles

Ontology for emotions and affective phenomena

Reference-free reconstruction and error correction of transcriptomes from Nanopore long-read sequencing

A JSON-LD 1.1 Processor & API

Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.

This repository has been archived, currently maintained version is at https://github.com/iii-companion/companion

Data Wrangling and Processing for Genomics

mgatk: mitochondrial genome analysis toolkit

MTBseq is an automated pipeline for mapping, variant calling and detection of resistance mediating and phylogenetic variants from illumina whole genome sequence data of Mycobacterium tuberculosis complex isolates.

Learn interpretable computational phenotyping models from k-merized genomic data

An open-access bioinformatics text

Assemblytics is a bioinformatics tool to detect and analyze structural variants from a genome assembly by comparing it to a reference genome.

Simple pure Python SAM parser and objects for working with SAM records

A prediction model for differential gene expression (DE) based on genome-wide regulatory interactions

just annotate it, dammit!

Compute N50/NG50 and auN/auNG

Ontology Enhancement Proposal

Interactive assembly and analysis of RAD-seq data sets

A graph query language for the semantic web

Cyber-investigation Analysis Standard Expression (CASE) Ontology

Grammar of Scalable Linked Interactive Nucleotide Graphics

A curated list of awesome bioinformatics software.

Firmware for OWL devices

Code pipeline for the PaccMann^RL in iScience: https://www.cell.com/iscience/fulltext/S2589-0042(21)00237-6

Elastic, reproducible, and reusable genomic data science tools from R backed by cloud resources

Multiome GRN inference.

💠 Ontology matching system based on formal concept analysis

An R framework for phylostratigraphy

Tools for analyzing 10X Genomics data

(WIP) best-practices workflow for rare disease

An interactive web portal for exploring immuno-oncology data

A package for designing activity-informed nucleic acid diagnostics for viruses.

A collection of icons for the Semantic Web and Linked Open Data world.

PERF is an Exhaustive Repeat Finder

MindTheGap is a SV caller for short read sequencing data dedicated to insertion variants (all sizes and types). It can also be used as a local assembly tool.

Stylizer is a flexible Css framework based on the visual aspect, the framework offers you a clean and easy work.

Biological Collections Ontology

Digital Cell Sorter (DCS): single cell RNA-seq analysis toolkit. Documentation:

Predict AMPs in (meta)genomes and peptides

In-memory Graph Database and Knowledge Graph with Natural Language Interface, compatible with Pandas

Implementation of Enformer, Deepmind's attention network for predicting gene expression, in Pytorch

TransPi – a comprehensive TRanscriptome ANalysiS PIpeline for de novo transcriptome assembly

A package for designing compact and comprehensive capture probe sets.

dysgu-SV is a collection of tools for calling structural variants using short or long reads

🌐 linkedresearch.org

Resource of human chromosome schematics & images

Streaming, transforming, SPARQL-based CSV to RDF converter. Apache license.

find large indels (in the blind spot between GATK/freebayes and SV callers)