1815 Open source projects that are alternatives of or similar to Tiledb Vcf

Scalable genomic data analysis.

Bayesian genotyper for structural variants

Haplotype VCF comparison tools

cython + htslib == fast VCF and BCF processing

annotate a VCF with other VCFs/BEDs/tabixed files

A collection of scripts and notes related to genomics and bioinformatics

Personalized Genomics and Proteomics. Main diet: Ensembl, side dishes: SNPs

Official code repository for GATK versions 4 and up

Ten Quick Tips for Deep Learning in Biology

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

Assembling the cause of phenotypes and genotypes from NGS data

Fast alignment and preprocessing of chromatin profiles

A package for designing compact and comprehensive capture probe sets.

Compute N50/NG50 and auN/auNG

Provide R access to the NCI Genomic Data Commons portal.

Method to optimally select samples for validation and resequencing

Predict plasmids from uncorrected long read data

A fast 23andMe genome text file parser, now superseded by arv

BACNET is a Java based platform to develop website for multi-omics analysis

Example client programs for Saphetor's VarSome annotation API

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

De novo assembly based variant calling pipeline for Illumina short reads

[DEPRECATED] Bioinformatics and Computational Biology Infrastructure for Julia

Distributed scikit-learn meta-estimators in PySpark

A comprehensive tutorial about GWAS and PRS

Efficient pythonic random access to fasta subsequences

highly-efficient & lightweight mutation signature matrix aggregation

SaffronTree: Reference free rapid phylogenetic tree construction from raw read data

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Fast hash function for DNA sequences

An open-access bioinformatics text

Bystro genetic analysis (annotation, filtering, statistics)

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

Simple pure Python SAM parser and objects for working with SAM records

Home of the Genomic Feature and Variation Ontology (GFVO)

A curated list of awesome bioinformatics software.

Earl Grey: A fully automated TE curation and annotation pipeline

Genotyping of segregating mobile elements insertions

Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI

Welcome to the website and github repository for the Genome Analysis Module. This website will guide the learning experience for trainees in the UBC MSc Genetic Counselling Training Program, as they embark on a journey to learn about analyzing genomes.

Elastic, reproducible, and reusable genomic data science tools from R backed by cloud resources

Interactive and Reactive Data Science using Scala and Spark.

An open source platform for managing and analyzing biomedical big data

Interactive network visualization in Python and Dash, powered by Cytoscape.js

A high-performance, Pythonic language for bioinformatics

Ultra-fast and memory-efficient (meta-)genome assembler

A fast and sensitive gapped read aligner

A modern genome browser built with JavaScript and HTML5.

The next version of bwa-mem

Java utilities for Bioinformatics

Python library to facilitate genome assembly, annotation, and comparative genomics

Code for Agile Data Science 2.0, O'Reilly 2017, Second Edition

Scripts to download genomes from the NCBI FTP servers

Data science Python notebooks: Deep learning (TensorFlow, Theano, Caffe, Keras), scikit-learn, Kaggle, big data (Spark, Hadoop MapReduce, HDFS), matplotlib, pandas, NumPy, SciPy, Python essentials, AWS, and various command lines.

C library for high-throughput sequencing data formats

H2O is an Open Source, Distributed, Fast & Scalable Machine Learning Platform: Deep Learning, Gradient Boosting (GBM) & XGBoost, Random Forest, Generalized Linear Modeling (GLM with Elastic Net), K-Means, PCA, Generalized Additive Models (GAM), RuleFit, Support Vector Machine (SVM), Stacked Ensembles, Automatic Machine Learning (AutoML), etc.

Tools to process and analyze deep sequencing data.

Unix, R and python tools for genomics and data science

Data intensive science for everyone.