400 Open source projects that are alternatives of or similar to motifmatchr

Assembling the cause of phenotypes and genotypes from NGS data

pytoda - PaccMann PyTorch Dataset Classes. Read the docs: https://paccmann.github.io/paccmann_datasets/

This repository has been archived, currently maintained version is at https://github.com/iii-companion/companion

SIRIUS is a software for discovering a landscape of de-novo identification of metabolites using tandem mass spectrometry. This repository contains the code of the SIRIUS Software (GUI and CLI)

EpiViz is a scientific information visualization tool for genetic and epigenetic data, used to aid in the exploration and understanding of correlations between various genome features.

GRAph-based Finding of Individual Motif Occurrences

MView extracts and reformats the results of a sequence database search or multiple alignment.

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

Stacked Denoising AutoEncoder based on TensorFlow

The BridgeDb Library source code

A curated list of resources for machine learning for small-molecule drug discovery

GNparser normalises scientific names and extracts their semantic elements.

Genotyping of segregating mobile elements insertions

A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment

Version 5 of the CAFE phylogenetics software

Toolkit for preparing genomes for submission to NCBI

GWAS summary statistics files QC tool

Computational Analysis of Novel Drug Opportunities

Feature extraction algorithm for genomic data

The Ensembl Compara Perl API and SQL schema

Per-base per-nucleotide depth analysis

A simple command-line tool to download data from Joint Genome Institute databases

🎯 Human transcription factor target genes.

Haplotype VCF comparison tools

Rapid determination of appropriate reference genomes.

A curated list of Cheminformatics libraries and software.

Ploidy agnostic phasing pipeline and algorithm

Official git repository for Biopython (originally converted from CVS)

React rerelease of MSAViewer

cython + htslib == fast VCF and BCF processing

MetaOmGraph: a workbench for interactive exploratory data analysis of large expression datasets

An overview of algorithms for estimating pseudotime in single-cell RNA-seq data

(No maintenance) OpenGene, core libraries for NGS data analysis and bioinformatics in Julia

🍺🔬 Bioinformatics formulae for the Homebrew package manager (macOS and Linux)

SaffronTree: Reference free rapid phylogenetic tree construction from raw read data

Remote protein homology detection suite.

Genomics data visualization in Python by using matplotlib.

An ultrafast memory-efficient short read aligner

API for linked biological knowledge

Ultrafast de novo assembly for long noisy reads (though having no consensus step)

3D printed sculpture of a DNA molecule, showing my own genome

🔬 BEDOPS: high-performance genomic feature operations

Time Series Motif Detection in Python

A community-maintained repository of cancer clinical knowledge bases and databases focused on cancer variants.

netSmooth: A Network smoothing based method for Single Cell RNA-seq imputation

code for reading and processing Allen Institute for Brain Science data

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

A powerful open source data warehouse system

Bystro genetic analysis (annotation, filtering, statistics)

DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

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

The modern C++ library for sequence analysis. Contains version 3 of the library and API docs.

Highly customizable, ambiguity-aware dotplots for visual sequence analyses

Reproducible bioinformatics pipelines in python. Import any Unix tool/command in python.

PathwayMapper: An interactive and collaborative graphical curation tool for cancer pathways

A curated list of awesome bioinformatics software.

Read DNA sequences from colourful Microsoft Word documents

CCS: Generate Highly Accurate Single-Molecule Consensus Reads (HiFi Reads)

Method to optimally select samples for validation and resequencing

Command line tool to run batch jobs concurrently with ETL framework on AWS or other cloud computing resources