186 Open source projects that are alternatives of or similar to kana

GREIN : GEO RNA-seq Experiments Interactive Navigator

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

Next-Gen Sequencing tools from the Horvath Lab

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

🐟 🔬🦀 alevin-fry is an efficient and flexible tool for processing single-cell sequencing data, currently focused on single-cell transcriptomics and feature barcoding.

A Toolkit for Interactive Statistical Data Visualization

MetaOmGraph: a workbench for interactive exploratory data analysis of large expression datasets

Pileup biallelic SNPs from single-cell and bulk RNA-seq data

Dynamical systems methods for RNA velocity analysis

kallisto | bustools workflow for pre-processing single-cell RNA-seq data

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

📊 An R htmlwidget interface to the TauCharts javascript library

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

Version 2.1.0 released

Feature extraction algorithm for genomic data

Julia package for the Apache ECharts v4 visualization library

A tool that allows to get UMI counts from a single cell protein assay

Simulating single-cell data using gene regulatory networks 📠

Reproducible bioinformatics pipelines in python. Import any Unix tool/command in python.

A deep learning-based tool for alignment and integration of single cell genomic data across multiple datasets, species, conditions, batches

Interactive Differential Expression AnaLysis - DE made accessible and reproducible

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

Multi-omics analysis protocols by Lyu.

An interactive 3D web viewer of up to million points on one screen that represent data. Provides interaction for viewing high-dimensional data that has been previously embedded in 3D or 2D. Based on graphosaurus.js and three.js. For a Linux release of a complete embedding+visualization pipeline please visit https://github.com/sonjageorgievska/Em…

A comprehensive tool for processing, analyzing and visulizing single cell chromatin accessibility sequencing data

Reproducible reanalysis of a combined ChIP-Seq & RNA-Seq data set

RNA-seq analysis pipeline for detection gene-fusions

Graphic tool for the automated evolutionary design of composite models

R package to do the Ligand Receptor Analysis Visualization

Summer school course materials collection

A course on Analysing Next Generation (/High Throughput etc..) Sequencing data using Bioconductor

CoNekT (short for Co-expression Network Toolkit) is a platform to browse co-expression data and enable cross-species comparisons.

Reference-based transcript discovery from long RNA read

A versatile sequenced read processor for nanopore direct RNA sequencing

Clone identification from single-cell data

Reference-free reconstruction and error correction of transcriptomes from Nanopore long-read sequencing

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

Glimma R package

Streamlining SLAM-seq analysis with ultra-high sensitivity

Single-cell copy number calling and event history reconstruction.

FEELnc : FlExible Extraction of LncRNA

Fast visualization tool for large-scale and high dimensional single-cell data

Porting DESeq2 and DEXSeq into python via rpy2

📊 Graphical User Interface for TCC package

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

Software for exploration of gene expression data from single-cell RNA sequencing.

The Python implementation of JavaScript Library RoughViz to create interactive sketchy charts

Nextflow RNA-Seq Best Practice analysis pipeline, used at the SciLifeLab National Genomics Infrastructure.

Using Kaggle Data and Real World Data for Data Science and prediction in Python, R, Excel, Power BI, and Tableau.

A pipeline for the computational evaluation of RNA-Seq data

Conditional out-of-distribution prediction

CellNet: network biology applied to stem cell engineering

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

🐍 Snakefiles for common RNA-seq data analysis workflows.

Visualizing Association Rules and Frequent Itemsets with R

Method for Identifying Novel Transcripts and Isoforms using Equivalence classes, in cancer and rare disease.

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

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

RNASeq pipeline

An automated RNA-seq pipeline using Nextflow