474 Open source projects that are alternatives of or similar to picardmetrics

Pathogen-Host Analysis Tool - A modern Next-Generation Sequencing (NGS) analysis platform

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

Feature extraction algorithm for genomic data

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

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

Streamlining SLAM-seq analysis with ultra-high sensitivity

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

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

Fast alignment and preprocessing of chromatin profiles

Fast and flexible ORF finder

Method to optimally select samples for validation and resequencing

Rapid determination of appropriate reference genomes.

Read DNA sequences from colourful Microsoft Word documents

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

exploratory and interactive microbiome analyses based on heatmaps

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

Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.

Mapping-Assisted Targeted-Assembly for Metagenomics

Version 2.1.0 released

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

A computational library for learning and evaluating biological knowledge graph embeddings

This repository has been archived, currently maintained version is at https://github.com/iii-companion/companion

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

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

A curated list of resources for machine learning for small-molecule drug discovery

WebGL Heatmap Viewer for Big Data and Bioinformatics

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

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

An open-access bioinformatics text

A library to build and execute typed scientific workflows

Unsupervised domain adaptation method for relation extraction

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.

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

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

Bystro genetic analysis (annotation, filtering, statistics)

Per-base per-nucleotide depth analysis

A Python platform for Structural Bioinformatics

Fast motif matching in R

Mulled - Automatized Containerized Software Repository

Genomics data visualization in Python by using matplotlib.

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

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…

Compute N50/NG50 and auN/auNG

Highly customizable, ambiguity-aware dotplots for visual sequence analyses

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

React rerelease of MSAViewer

Nanopore data analysis in R

Assembling the cause of phenotypes and genotypes from NGS data

Genotype Calling with Uncertainty from Sequencing Data in Polyploids 🍌🍓🥔🍠🥝

A curated list of awesome bioinformatics software.

Provide R access to the NCI Genomic Data Commons portal.

Version 5 of the CAFE phylogenetics software

Stacked Denoising AutoEncoder based on TensorFlow

A package for designing compact and comprehensive capture probe sets.

🎯 Human transcription factor target genes.

Genotyping of segregating mobile elements insertions

Useful bioinformatic scripts

2017_2018 single cell RNA sequencing Workshop UCD_UCB_UCSF

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

GWAS summary statistics files QC tool