437 Open source projects that are alternatives of or similar to ideal

Runs a pubmed query, returns results and allows user to explore high-level structure of returned documents

📊 Gene expression in neuroexpresso database

SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data

Test and Item Analysis via Shiny

No description or website provided.

Utilities for analyzing next generation sequencing data.

CICERO: a versatile method for detecting complex and diverse driver fusions using cancer RNA sequencing data.

A tool to identify, orient, trim and rescue full length cDNA reads

A DYOR engine for the Bitcoin Lightning Network

A robust, extensible metagenomics pipeline

The Shiny map for Local Authorites

Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data

Automated generation of tailored bioinformatics Jupyter Notebooks via a user interface.

circtools: a modular, python-based framework for circRNA-related tools that unifies several functionalities in a single, command line driven software.

Interactive visualizations for Dr. Richard Baraniuk's open-source "Signals and Systems" textbook. R / Shiny.

📄 fullPage.js, pagePiling.js and multiScroll.js for shiny

A phylogenetic profile analysis tool

Pipeline to find aberrant events in RNA-Seq data, useful for diagnosis of rare disorders

RNA-seq analysis pipeline for detection gene-fusions

Reproducible Self-Publishing - Demo Publications in the Most Common Formats

Risk Assessment App

Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles

code to reproduce my shiny apps

An interactive web application for the analysis of sports data from GPS-enabled tracking devices

tabler dashboard template for shiny

Differential expression (DE); gene set Enrichment Analysis (GSEA); single cell RNAseq studies (scRNAseq)

Best practices for applying machine learning to bacterial 16S rRNA gene sequencing data

Cascading filter modules for Shiny

Create Easily Canvas in Shiny and RMarkdown Documents

An shiny input widget for selecting directories

Reproducible research and reusable acyclic workflows in Python. Execute code on HPC systems as if you executed them on your personal computer!

🐍 Snakefiles for common RNA-seq data analysis workflows.

A library for creating and curating reproducible pipelines for scientific and industrial machine learning

Summer school course materials collection

PECA is a software for inferring context specific gene regulatory network from paired gene expression and chromatin accessibility data

A timeInput widget for Shiny

Pipeline for annotating genomes using long read transcriptomics data with pinfish

Quantitative features for mass spectrometry data

Organisation du soutien entre agents : moyens engagés, idées, etc.

📜 Scrollytelling in R, because its easier than D3™

Processing of single cell RNAseq data for the recovery of TCRs in python

R Shiny application for interactive analysis of networks created by vosonSML.

Toolkit for highly memory efficient analysis of single-cell RNA-Seq, scATAC-Seq and CITE-Seq data. Analyze atlas scale datasets with millions of cells on laptop.

an R/shiny application for creation of Circos plot interactively

Contribute Packages to Bioconductor

NOTE: This repo is archived. Please see https://github.com/benmarwick/rrtools for my current approach

A Deep Learning Approach to Ultrasound Image Recovery

pytask is a workflow management system which facilitates reproducible data analyses.

Extra-strength glue engines for R Markdown and Quarto

Shiny app exploring Edinburgh traffic collision data

obAnalytics Shiny front-end

R app for daily Covid-19 Re estimates

A proof of concept RNA-Seq pipeline with Nextflow

Modeling and correcting fragment sequence bias for RNA-seq

TransPi – a comprehensive TRanscriptome ANalysiS PIpeline for de novo transcriptome assembly

vue.js for R

Cross-disease comparison of case-control gut microbiome studies

A pipeline for the computational evaluation of RNA-Seq data

Use shiny with event handlers instead of reactivity

PlotTwist - a web app for plotting and annotating time-series data