527 Open source projects that are alternatives of or similar to CellO

Streamlining SLAM-seq analysis with ultra-high sensitivity

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

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

A library to build and execute typed scientific workflows

API for linked biological knowledge

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

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

Feature extraction algorithm for genomic data

Deep Learning based cell composition analysis with Scaden.

CellNet: network biology applied to stem cell engineering

Stacked Denoising AutoEncoder based on TensorFlow

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

The Microbiome Interpretable Temporal Rule Engine

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

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

Highly customizable, ambiguity-aware dotplots for visual sequence analyses

exploratory and interactive microbiome analyses based on heatmaps

Assembling the cause of phenotypes and genotypes from NGS data

Provide R access to the NCI Genomic Data Commons portal.

Introduction to the Unix Shell for biologists

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

GWAS summary statistics files QC tool

Rapid determination of appropriate reference genomes.

A curated list of awesome bioinformatics software.

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

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

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

Pipeline for initial analysis of droplet-based single-cell RNA-seq data

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.

Fast and flexible ORF finder

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

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…

Fast motif matching in R

Useful bioinformatic scripts

Dynamical systems methods for RNA velocity analysis

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

React rerelease of MSAViewer

An open-access bioinformatics text

No description or website provided.

Unsupervised domain adaptation method for relation extraction

Genotyping of segregating mobile elements insertions

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

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

Bystro genetic analysis (annotation, filtering, statistics)

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

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

A Python platform for Structural Bioinformatics

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

Read DNA sequences from colourful Microsoft Word documents

Method to optimally select samples for validation and resequencing

Mulled - Automatized Containerized Software Repository

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.

Version 2.1.0 released

Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.

Mapping-Assisted Targeted-Assembly for Metagenomics

Fast alignment and preprocessing of chromatin profiles

This repository has been archived, currently maintained version is at https://github.com/iii-companion/companion

Compute N50/NG50 and auN/auNG

Per-base per-nucleotide depth analysis