fulcrumgenomics / soptLinks
An argument parsing library for Scala
☆11Updated 2 months ago
Alternatives and similar repositories for sopt
Users that are interested in sopt are comparing it to the libraries listed below
Sorting:
- Load genomic BAM files using Apache Spark☆21Updated 7 years ago
- A scala based DSL and framework for writing and executing bioinformatics pipelines as Directed Acyclic GRaphs☆69Updated 3 years ago
- Bioinformatics for the Scala programming language☆112Updated last week
- A genomics pipeline build on top of the GATK Queue framework. Main repository: https://github.com/NationalGenomicsInfrastructure/piper (m…☆21Updated 8 years ago
- Client for the Cromwell workflow engine☆17Updated last year
- A fast, parallel, streaming multipart uploader for S3☆13Updated 8 years ago
- Notebook service☆44Updated last week
- ☆15Updated 4 months ago
- Rawls service for DSDE☆25Updated this week
- Efficient, distributed downloads of large files from S3 to HDFS using Spark.☆17Updated 8 years ago
- Pipeline for Recombinant Yeast genoMEs That Identifies Markers of Engineering☆12Updated last year
- ☆31Updated this week
- A metagenomic and isolate assembly and analysis pipeline built with AMOS☆93Updated 7 years ago
- find large indels (in the blind spot between GATK/freebayes and SV callers)☆39Updated 7 years ago
- Open source formats for scalable genomic processing systems using Avro. Apache 2 licensed.☆40Updated 6 months ago
- Bonsai: Fast, flexible taxonomic analysis and classification☆72Updated last year
- Benchmarking toolkit for variant calling☆48Updated 4 years ago
- a simple lightweight workflow engine for data analysis scripting☆11Updated 5 years ago
- A comprehensive analysis tool for Ribo-seq and small RNA-seq data☆10Updated 5 years ago
- An approximate sequence pattern matcher for FASTQ/FASTA files.☆31Updated 9 years ago
- ☆12Updated 7 years ago
- Explore and analyze biological sequence data☆16Updated last year
- Basic, no assumptions, multi-pileup☆24Updated 11 years ago
- LoFreq Version 3☆27Updated 4 years ago
- A Variant Caller, Distributed. Apache 2 licensed.☆71Updated 6 years ago
- toolkit for file system virtualisation of random access compressed FASTA, FAI, DICT & TWOBIT files☆22Updated last year
- Windowed Adaptive Trimming for fastq files using quality☆25Updated 10 years ago
- pre-process illumina reads☆18Updated 2 years ago
- BigWIG, BigBED and TDF for the JVM☆14Updated 4 years ago
- This repository has been archived, currently maintained version is at https://github.com/iii-companion/companion☆21Updated 4 years ago