418 Open source projects that are alternatives of or similar to searchgui

A Comet-based, best practices proteomics pipeline.

Interpretation of proteomics identification results

Ultrafast, comprehensive peptide identification for mass spectrometry–based proteomics

BACNET is a Java based platform to develop website for multi-omics analysis

Open source Java library for computational proteomics

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

Phylogenetic trees in Julia

Examples using Clustergrammer2 to explore high-dimensional datasets.

🚦 Run Picard on BAM files and collate 90 metrics into one file.

WebLogo 3: Sequence Logos redrawn

De novo assembly based variant calling pipeline for Illumina short reads

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

A fast 23andMe genome text file parser, now superseded by arv

A simplified pipeline for ctDNA sequencing data analysis

Predict plasmids from uncorrected long read data

Sample search by metadata and features

VirNet: A deep attention model for viral reads identification

Welcome to the website and github repository for the Genome Analysis Module. This website will guide the learning experience for trainees in the UBC MSc Genetic Counselling Training Program, as they embark on a journey to learn about analyzing genomes.

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…

Classifies genes as an oncogene, tumor suppressor gene, or as a non-driver gene by using Random Forests

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

Cross-platform normalization enables machine learning model training on microarray and RNA-seq data simultaneously

A library to build and execute typed scientific workflows

Fast motif matching in R

For live demo, see http://lh3lh3.users.sourceforge.net/bioseq.shtml

Software for comparing contact maps from HiC, CaptureC and other 3D genome data.

Prize-Collecting Steiner Forests for Interactomes

No description or website provided.

DOM Text Based Multiple Sequence Alignment Library

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

The uncompromising Snakemake code formatter

Project metadata manager for PEPs in Python

MMseqs2 app to run on your workstation or servers

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

This library tackles the construction and efficient execution of computational chemistry workflows

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

The Ontology for Biomedical Investigations

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

A D library for computational biology and bioinformatics

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

micca - MICrobial Community Analysis

Introduction to the Unix Shell for biologists

Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.

Mapping-Assisted Targeted-Assembly for Metagenomics

React rerelease of MSAViewer

ImmuneDB - A system for the analysis and exploration of high-throughput adaptive immune receptor sequencing data

exploratory and interactive microbiome analyses based on heatmaps

No description or website provided.

Compare different differential abundance and expression methods

Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI

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

Curated list of bioinformatics formats and publications

📦 🐳 Dockerfiles and documentation on tools for public health bioinformatics

A curated list of awesome bioinformatics software.

Build and maintain multiple custom conda environments all in once place.

Genotyping of segregating mobile elements insertions

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.

𝙋𝙝𝙮𝙡𝙤𝙜𝙚𝙣𝙚𝙩𝙞𝙘 𝘾𝙤𝙢𝙥𝙤𝙣𝙚𝙣𝙩 𝙂𝙧𝙖𝙥𝙝 ⸺ Haskell program and libraries for general phylogenetic graph search

Real-time species-typing visualisation for nanopore data.

Aim to be the bioinformatics repository with more and newer packages