427 Open source projects that are alternatives of or similar to matam

micca - MICrobial Community Analysis

No description or website provided.

VirNet: A deep attention model for viral reads identification

A package for designing compact and comprehensive capture probe sets.

Improving genome bins through the combination of different binning programs

An ultra-sensitive and precise tool for characterizing T cell CDR3 sequences in TCR-seq and RNA-seq data.

A computational library for learning and evaluating biological knowledge graph embeddings

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

🐛 How to use CENTIPEDE to determine if a transcription factor is bound.

SIMD-accelerated library for computing global and X-drop affine gap penalty sequence-to-sequence or sequence-to-profile alignments using an adaptive block-based algorithm.

Provide R access to the NCI Genomic Data Commons portal.

CoNekT (short for Co-expression Network Toolkit) is a platform to browse co-expression data and enable cross-species comparisons.

Fast and flexible ORF finder

Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.

Method to optimally select samples for validation and resequencing

A curated list of awesome bioinformatics software.

Compute N50/NG50 and auN/auNG

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

WebGL Heatmap Viewer for Big Data and Bioinformatics

Fast motif matching in R

Feature extraction algorithm for genomic data

Useful bioinformatic scripts

2017_2018 single cell RNA sequencing Workshop UCD_UCB_UCSF

An NGS read trimming tool that is specific, sensitive, and speedy. (production)

Read DNA sequences from colourful Microsoft Word documents

My own tools code for NGS data analysis (Next Generation Sequencing)

Read and write FASTQ and FASTA efficiently from Python

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

Per-base per-nucleotide depth analysis

Bystro genetic analysis (annotation, filtering, statistics)

React rerelease of MSAViewer

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Genomics data visualization in Python by using matplotlib.

Mulled - Automatized Containerized Software Repository

exploratory and interactive microbiome analyses based on heatmaps

This repository has been archived, currently maintained version is at https://github.com/iii-companion/companion

Highly customizable, ambiguity-aware dotplots for visual sequence analyses

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

Genotyping of segregating mobile elements insertions

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

Assembling the cause of phenotypes and genotypes from NGS data

Version 5 of the CAFE phylogenetics software

Ultrafast, comprehensive peptide identification for mass spectrometry–based proteomics

Stacked Denoising AutoEncoder based on TensorFlow

🎯 Human transcription factor target genes.

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

Ploidy agnostic phasing pipeline and algorithm

GWAS summary statistics files QC tool

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

Compare different differential abundance and expression methods

Rapid determination of appropriate reference genomes.

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

Fast hash function for DNA sequences

API for linked biological knowledge

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.

An open-access bioinformatics text

Bioinformatics pipeline for SARS-CoV-2 sequencing at CZ Biohub

Golang for Bioinformatics

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

Genotype Calling with Uncertainty from Sequencing Data in Polyploids 🍌🍓🥔🍠🥝