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A performant, and portable jq wrapper to facilitate the consumption and output of formats other than JSON; using jq filters to transform the data.
A reactive notebook for Python — run reproducible experiments, query with SQL, execute as a script, deploy as an app, and version with git. Stored as pure Python. All in a modern, AI-native editor.
A shard.yml parser for the Crystal language
SigProfilerExtractor allows de novo extraction of mutational signatures from data generated in a matrix format. The tool identifies the number of operative mutational signatures, their activities i…
SigProfilerMatrixGenerator creates mutational matrices for all types of somatic mutations. It allows downsizing the generated mutations only to parts for the genome (e.g., exome or a custom BED fil…
A fully featured MinKNOW simulator for testing read until experiments.
OptionParser is a class for command-line option analysis.
RNA Velocity generalized through dynamical modeling
Synchronization primitives for safe concurrent and parallel Crystal code.
Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and Oxford Nanopore ultra-long reads.
Ameba extension for Visual Studio Code
ImageMagick is a free, open-source software suite for creating, editing, converting, and displaying images. It supports 200+ formats and offers powerful command-line tools and APIs for automation, …
Leica Image Format (LIF) file reader for Python
A blazing fast internationalization (i18n) library for Crystal with compile-time key lookup.
A crystal shard to create Model Context Protocol servers
Clonal and subclonal Copy Number Alteration quality check integrating somatic mutation
Fast method for inferring cancer clonal population structure from SNV data.
SoundFont2 synthesizer library in a single C/C++ file
A command line tool that allows you to easily share files and directories over the network