426 Open source projects that are alternatives of or similar to SemiBin

Improving genome bins through the combination of different binning programs

micca - MICrobial Community Analysis

VirNet: A deep attention model for viral reads identification

Mapping-Assisted Targeted-Assembly for Metagenomics

A package for designing compact and comprehensive capture probe sets.

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

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

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

Useful bioinformatic scripts

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Fast motif matching in R

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Fast alignment and preprocessing of chromatin profiles

Introduction to Applied Mathematics and Informatics in Drug Discovery (AMIDD)

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Highly customizable, ambiguity-aware dotplots for visual sequence analyses

Provide R access to the NCI Genomic Data Commons portal.

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

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Unsupervised domain adaptation method for relation extraction

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

Fast and flexible ORF finder

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

Automated statistical and functional fine-mapping pipeline with extensive API access to datasets.

A curated list of awesome bioinformatics software.

Method to optimally select samples for validation and resequencing

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.

GraphBin: Refined binning of metagenomic contigs using assembly graphs

Per-base per-nucleotide depth analysis

Molecular informatics toolkit with a comprehensive integration of bioinformatics and cheminformatics tools for drug discovery.

Genomics data visualization in Python by using matplotlib.

Project metadata manager for PEPs in Python

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

Assembling the cause of phenotypes and genotypes from NGS data

Ultrafast, comprehensive peptide identification for mass spectrometry–based proteomics

Stacked Denoising AutoEncoder based on TensorFlow

transparently build CWL and Galaxy XML tool definitions for any script that uses argparse

GWAS summary statistics files QC tool

exploratory and interactive microbiome analyses based on heatmaps

Rapid determination of appropriate reference genomes.

📊 Identify cell types and pathways affected by genetic risk loci.

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

Compare different differential abundance and expression methods

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

R package for microbiome biomarker discovery

Bystro genetic analysis (annotation, filtering, statistics)

React rerelease of MSAViewer

A Python platform for Structural Bioinformatics

CellO: Gene expression-based hierarchical cell type classification using the Cell Ontology

Mulled - Automatized Containerized Software Repository

Genotyping of segregating mobile elements insertions

SigProfilerExtractor allows de novo extraction of mutational signatures from data generated in a matrix format. The tool identifies the number of operative mutational signatures, their activities in each sample, and the probability for each signature to cause a specific mutation type in a cancer sample. The tool makes use of SigProfilerMatrixGen…

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

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.

Compute N50/NG50 and auN/auNG

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

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

A fast 23andMe genome text file parser, now superseded by arv

Generate duplex/single consensus reads to reduce sequencing noises and remove duplications