fnothaft Goto Github PK
Name: Frank Austin Nothaft
Type: User
Company: @translating-science
Location: Oakland, CA
Blog: http://www.fnothaft.net
Frank Austin Nothaft's Projects
gatk-whole-genome-pipeline
End to end pipeline for calling variants against an entire genome
glow
An open-source toolkit for large-scale genomic analysis
gnocchi
gnocchi-1
gt
hadoop-bam
Hadoop-BAM is a Java library for the manipulation of files in common bioinformatics formats using the Hadoop MapReduce framework with the Picard SAM JDK, and command line tools similar to SAMtools.
hadoop-interfaces
homebrew-science
Scientific formulae for the Homebrew package manager
htsjdk
A Java API for high-throughput sequencing data (HTS) formats.
ieee_tbd_2016
incubator-parquet-mr
Mirror of Apache Parquet
jsr203-hadoop
A Java NIO file system provider for HDFS
jsr203-s3a
mango
Visualization tools for genomic data. Apache 2 licensed.
mmtf-spark
Methods for the parallel and distributed analysis and mining of the Protein Data Bank using MMTF and Apache Spark.
mmtf-workshop-2017
Structural Bioinformatics Training Workshop & Hackathon 2017
pacmin
Assembler for PacBio reads. Apache 2 licensed.
parquet-mr
Java readers/writers for Parquet columnar file formats to use with Map-Reduce
picard
A set of tools (in Java) for working with next generation sequencing data in the BAM (http://samtools.sourceforge.net) format.
qc-metrics
Read and variant metrics, useable for pipeline quality control purposes. Apache 2 licensed.
readtaskteam
refvariationtaskteam
Work on data models and APIs for graph structures that represent the human reference genome plus common human genetic variants. Includes mapping to a reference genome, and standardization of the mechanism for referring to variants.
rnadam
An RNA fusion transcript pipeline built on top of ADAM. Apache 2 licensed.
sequence-graphs
Implementation of the Sequence Graphs data model
server
A reference implementation of the APIs defined in the schemas repository.
siren-release
Public version of the SiRen project
snap
Scalable Nucleotide Alignment Program -- a fast and accurate read aligner for high-throughput sequencing data
snappea
Parallel alignment using SNAP on ADAM. Apache 2 licensed.
snark
A nested vector library for Scala.
spark-bam
Load genomic BAM files using Apache Spark
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