hammerlab / spark-bam
Load genomic BAM files using Apache Spark
☆21Updated 6 years ago
Alternatives and similar repositories for spark-bam:
Users that are interested in spark-bam are comparing it to the libraries listed below
- Bioinformatics for the Scala programming language☆111Updated last year
- Finding a scalable alternative to the VCF File for genomics analysis☆14Updated 8 years ago
- A scala based DSL and framework for writing and executing bioinformatics pipelines as Directed Acyclic GRaphs☆69Updated 2 years ago
- Distributed execution of bioinformatics tools on Apache Spark. Apache 2 licensed.☆40Updated 2 months ago
- Parallel Genomic Analysis Toolkit☆14Updated 6 years ago
- A Variant Caller, Distributed. Apache 2 licensed.☆71Updated 6 years ago
- A library for manipulating bioinformatics sequencing formats in Apache Spark☆32Updated 2 months ago
- A genomics pipeline build on top of the GATK Queue framework. Main repository: https://github.com/NationalGenomicsInfrastructure/piper (m…☆21Updated 8 years ago
- Benchmarking toolkit for variant calling☆47Updated 4 years ago
- Population Stratification Analysis on Genomics Data Using Deep Learning☆26Updated 8 years ago
- ☆14Updated last month
- Graphical assessment of structrial variants using 10x genomics data☆10Updated 8 years ago
- SEQSpark documentation☆18Updated 4 years ago
- Samwell: a python package for using genomic files... well☆20Updated 2 years ago
- Windowed Adaptive Trimming for fastq files using quality☆25Updated 10 years ago
- Numerical Encoding for Human Genetic Variants☆41Updated last year
- WDL tools for parsing, type-checking, and more☆25Updated 3 weeks ago
- A Feature Density Estimator for High-Throughput Sequence Tags☆23Updated 3 years ago
- WebApp for DNA variants interpretation☆13Updated last week
- Open source formats for scalable genomic processing systems using Avro. Apache 2 licensed.☆40Updated 2 months ago
- Toil workflows for common genomic pipelines☆33Updated 5 years ago
- An argument parsing library for Scala☆10Updated last week
- Prepare Sailfish and Salmon output for downstream analysis☆43Updated 5 years ago
- Fast spliced aligner with low memory requirements☆41Updated 9 years ago
- Seave is a web platform that enables genetic variants to be easily filtered and annotated with in silico pathogenicity prediction scores …☆16Updated 6 years ago
- a string to graph aligner☆41Updated 8 years ago
- ViraPipe is distributed Apache Spark based metagenome analytics pipeline for scalable detection of pathogens from NGS data☆16Updated 6 years ago
- Bioinformatics Open Source Sequence machine☆33Updated last year
- Seqnature: incorporate SNPs and Indels into a reference genome☆16Updated 8 years ago
- Preprocessing paired-end reads produced with experiment-specific protocols☆32Updated 6 years ago