Extensible full DAG streaming computation server with services and jobs for RNA-Seq, Tn-Seq, WG-Seq and Term-Seq.

Various utility functionality covering common tasks; trees; clustering; graphs; probability, stats, and information theory, et.al.

Saite delivered as self installing / running uberjar

Interactive document creation for exploratory graphics and visualizations. 咲いて (in bloom). Built on top of hanami vega/vega-lite library with CodeMirror and self hosted ClojureScript

Interactive arts and charts plotting with Clojure(Script) and Vega-lite / Vega. Flower viewing 花見 (hanami)

A very light weight, simple websocket based messaging system in Clojure(Script). Converse/talk 話す(hanasu).

Various bioinformatic general utility tools for unified file reading, sequence xform, sequence entropy information processing , et.al.

Data Flow Matrix Machines. Generalization of recurrent neural networks.

An approach to various sequence (genes, amplicons, ncRNA, et. al) similarity via informed embeddings, matrices, and LA

Determine true transcription termination sites from Term-Seq data using ancillary RNA-Seq data

word2vec in clj by way of medallia/Word2VecJava

Bare Bones example Hanami client/server app

General file system utility functions (eg, dodir cpfiles, generalized move, etc). Extended from an original work of Miki Tebeka

Hanasu for Python

Instrumented interactive visulizations for Aerobio sequencer data analyses

Pangenome clustering using entropy, relative entropy, cumulative RE, hybrid distributions, et.al

Various experiments using all manner of ClojureScript stuff (re-com, reagent, reframe, quil, etc)

Client<->Server/Peer<->Peer message protocol and implementations

Javascript local VCF and Tabix index file parsing and processing

Javascript local BAM and BAI index file parsing and processing

A robust, flexible, full program DAG, declarative tool definition, extensible toolset iobio server in Clojure. With function nodes, streaming and non streaming flow, dynamic caching, logging, and s…

Javascript common functionality across tabix and bai index file processing

Javascript bgzf inflation and deflation

Javascript read depth and random sampling on bai (bam) and tba (vcf/tabix) index file and binary readers

Genomic Analysis Illuminating Structured RNA