jsa-aerial

hanami

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

saite

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

hanasu

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

DMM

Data Flow Matrix Machines. Generalization of recurrent neural networks.

aerobio

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

aerial.utils

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

gaisr

Genomic Analysis Illuminating Structured RNA

js-local-vcf

Javascript local VCF and Tabix index file parsing and processing

js-local-bam

Javascript local BAM and BAI index file parsing and processing

bbhanami

Bare Bones example Hanami client/server app

jsbgzf

Javascript bgzf inflation and deflation

aerial.bio.utils

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

aerosaite

Saite delivered as self installing / running uberjar

clj-iobio

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 superior error handling.

msgpacket

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

pyhanasu

Hanasu for Python

aerial.fs

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

aeroviews

Instrumented interactive visulizations for Aerobio sequencer data analyses

bam.iobio.io

http://bam.iobio.io

cljs-adventures

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

js-bv-common

Javascript common functionality across tabix and bai index file processing

js-bv-sampling

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

jsa-aerial.github.io

md-to-hiccup

Convert markdown to hiccup in one pass

packages

Javascript libraries packaged up with Google Closure externs

panclus

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

SeqSim

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

TTSfinder

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

vega-lite

A concise grammar of interactive graphics, built on Vega.

word2vec-clj

word2vec in clj by way of medallia/Word2VecJava