429 Open source projects that are alternatives of or similar to snpsea

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

Feature extraction algorithm for genomic data

GWAS summary statistics files QC tool

A faster lmm for GWAS. Supports GPU backend.

API for linked biological knowledge

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

Highly customizable, ambiguity-aware dotplots for visual sequence analyses

exploratory and interactive microbiome analyses based on heatmaps

Stacked Denoising AutoEncoder based on TensorFlow

Rapid determination of appropriate reference 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…

React rerelease of MSAViewer

Unsupervised domain adaptation method for relation extraction

Genomics data visualization in Python by using matplotlib.

Ultrafast, comprehensive peptide identification for mass spectrometry–based proteomics

Assembling the cause of phenotypes and genotypes from NGS data

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

Useful bioinformatic scripts

Find causal cell-types underlying complex trait genetics

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

Examples using Clustergrammer2 to explore high-dimensional datasets.

Python API for comprehensive GWAS analysis using GEMMA

Genotyping of segregating mobile elements insertions

Fast and flexible ORF finder

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

Grace, fastest, flexibility, simple PHP extension framework！优雅、极速、灵活、简单的PHP扩展框架！

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

Method to optimally select samples for validation and resequencing

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 🍌🍓🥔🍠🥝

A computational library for learning and evaluating biological knowledge graph embeddings

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

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

A library to build and execute typed scientific workflows

Provide R access to the NCI Genomic Data Commons portal.

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

Fast motif matching in R

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

An open-access bioinformatics text

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

Michigan Imputation Server: A new web-based service for imputation that facilitates access to new reference panels and greatly improves user experience and productivity

Project metadata manager for PEPs in Python

A platform for the display, enrichment, and curation of IIIF-based digital objects

A curated list of awesome bioinformatics software.

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

Introduction to the Unix Shell for biologists

Bystro genetic analysis (annotation, filtering, statistics)

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.

A Python platform for Structural Bioinformatics

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

Read DNA sequences from colourful Microsoft Word documents

Mulled - Automatized Containerized Software Repository

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

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

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.

Compute N50/NG50 and auN/auNG

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

Fast alignment and preprocessing of chromatin profiles

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