694 Open source projects that are alternatives of or similar to RATTLE

Version 2.1.0 released

Software for measuring poly(A) tail length and 3′-end modifications using a high-throughput sequencer

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

InterARTIC - An interactive local web application for viral whole genome sequencing utilising the artic network pipelines..

Reference-based transcript discovery from long RNA read

A versatile sequenced read processor for nanopore direct RNA sequencing

Digital Expression Explorer 2 (DEE2): a repository of uniformly processed RNA-seq data

Predict plasmids from uncorrected long read data

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

Genome Annotation Without Nightmares

Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling

A fast tool for hybrid genome assembly of long and short reads

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.

Pipeline for annotating genomes using long read transcriptomics data with pinfish

Project work and Assignments for Machine learning specialization course on Coursera by University of washington

Grammar of Scalable Linked Interactive Nucleotide Graphics

Tensorflow implementation of "Deep Multimodal Subspace Clustering Networks"

Tidy Verbs for Dealing with Genomic Data Frames https://const-ae.github.io/tidygenomics/

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

🐍 Snakefiles for common RNA-seq data analysis workflows.

Python implementation of AutoPlait (SIGMOD'14) without smoothing algorithm. NOTE: This repository is for my personal use.

Nanopore demultiplexing, QC and alignment pipeline

An R framework for phylostratigraphy

Bioinformatic Analysis pipeLine for SomAtic Mutations In Cancer

CWL tools and workflows for GGR

Learn interpretable computational phenotyping models from k-merized genomic data

Python Implementation for Linde-Buzo-Gray / Generalized Lloyd Algorithm for vector quantization.

Tools for analyzing 10X Genomics data

A Python library to visualize and analyze long-read transcriptomes

find large indels (in the blind spot between GATK/freebayes and SV callers)

DBSCAN Clustering Algorithm C# Implementation

A fast, scalable, and accurate local ancestry method.

A JavaScript library to allocate and optimize financial portfolios.

A tool to plot significant regions of GWAS

Cluster Algorithms from Scratch with Julia Lang. (K-Means and DBSCAN)

A python package to assess cluster tendency

A polylinear timeline with clustering, centred on interactions. — Doc and demo https://octree-gva.github.io/Zeitline/

🔬 De novo assembly of nanopore reads using nextflow

A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains

Assemblytics is a bioinformatics tool to detect and analyze structural variants from a genome assembly by comparing it to a reference genome.

Enjoy your transcriptomic data and analysis responsibly - like sipping a cocktail

VBZ compression plugin for nanopore signal data

Command line utility for manipulating Illumina-generated FastQ files.

This repository contains the collection of UCI (real-life) datasets and Synthetic (artificial) datasets (with cluster labels and MATLAB files) ready to use with clustering algorithms.

A package for designing activity-informed nucleic acid diagnostics for viruses.

R package: Simulate Expression data from igraph network using mvtnorm (CRAN; JOSS)

Predict people interest in renting specific NYC apartments. The challenge combines structured data, geolocalization, time data, free text and images.

FedGroup, A Clustered Federated Learning framework based on Tensorflow

SSH distribution for erlang

A comprehensive dimensional reduction framework to recover the latent topology from high-dimensional data.

MindTheGap is a SV caller for short read sequencing data dedicated to insertion variants (all sizes and types). It can also be used as a local assembly tool.

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

pythonic wrapper for libhts (moved to: https://github.com/quinlan-lab/hts-python)

mgatk: mitochondrial genome analysis toolkit

An online companion to the OSCA manuscript demonstrating Bioconductor resources and workflows for single-cell RNA-seq analysis.

Predict AMPs in (meta)genomes and peptides

Multilocus sequence typing by blast using the schemes from PubMLST

Multi-scale Detection of Chromatin Loops from Hi-C and Micro-C Maps using Scale-Space Representation

A catkin workspace in ROS which uses DBSCAN to identify which points in a point cloud belong to the same object.

The OpenSVC node agent