Top 12 ng Open-Source Projects

• deepvariant

  5 3,078 9.1 Python

  DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

  

Project mention: Look over my purchase, is there anything I should return? | /r/buildapc | 2023-05-06

• fastp

  9 1,768 4.7 C++

  An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)

  

Project mention: R pipelines for bulk RNA-seq analyses | /r/bioinformatics | 2023-12-09

fastp + multiQC + Salmon + DESeq2 all some nextflow workflow. It is a good exercise (not complicated) to create the pipeline from scratch the first time to properly understand each tool.

• InfluxDB

  www.influxdata.com sponsored

  Power Real-Time Data Analytics at Scale. Get real-time insights from all types of time series data with InfluxDB. Ingest, query, and analyze billions of data points in real-time with unbounded cardinality.

  

• galaxy

  4 1,313 10.0 Python

  Data intensive science for everyone.

  

Project mention: Need for GUIs for bioinformatic tools? | /r/bioinformatics | 2023-06-17

Maybe it would help you to look at the galaxy project: GitHub main site

• htslib

  7 772 9.0 C

  C library for high-throughput sequencing data formats

  

Project mention: Gentoo -Os vs -O3 application startup time? | /r/Gentoo | 2023-06-29

• jvarkit

  1 467 8.5 Java

  Java utilities for Bioinformatics

• juicer

  1 375 10.0 Shell

  A One-Click System for Analyzing Loop-Resolution Hi-C Experiments (by aidenlab)

  

• bioconvert

  1 351 6.1 Python

  Bioconvert is a collaborative project to facilitate the interconversion of life science data from one format to another.

  

• WorkOS

  workos.com sponsored

  The modern identity platform for B2B SaaS. The APIs are flexible and easy-to-use, supporting authentication, user identity, and complex enterprise features like SSO and SCIM provisioning.

  

• training-material

  1 294 10.0 HTML

  A collection of Galaxy-related training material

  

• TPMCalculator

  1 122 0.0 C++

  TPMCalculator quantifies mRNA abundance directly from the alignments by parsing BAM files

  

• ngsLD

  1 37 4.9 C++

  Calculation of pairwise Linkage Disequilibrium (LD) under a probabilistic framework

• Imputation_beagle_tutorial

  1 24 0.0

  Imputation-beagle-tutorial

• nsd

  8 4 4.7

  NGS Scripts Dumpster (by ngs-lang)

  

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• A note from our sponsor - InfluxDB
  www.influxdata.com | 30 Apr 2024

  Get real-time insights from all types of time series data with InfluxDB. Ingest, query, and analyze billions of data points in real-time with unbounded cardinality. Learn more →

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