18 projects
metamist
Python API for interacting with the Sample API system
cpg-workflows
CPG workflows for Hail Batch
cpg-hail
Scalable library for exploring and analyzing genomic data.
litfetch
Identifier -> the retrievable artifacts of a scholarly article: a pluggable source ladder + identifier resolvers.
semantic-code-review
A semantic diff reviewer for judging agent-authored changes — the LLM directs attention, you decide.
postern
Run untrusted Python in an OS-isolated sandbox whose only exit is a host-defined hatch.
xsd-former
Generate Protobuf definitions, JSON Schema, and Python XML-to-protobuf converters from XSD and DTD schemas.
litdown
Convert scholarly full-text XML — JATS (articles and BITS book parts) and Elsevier — to Markdown.
cpg-flow
CPG Flow API for Hail Batch
analysis-runner
Analysis runner to help make analysis results reproducible
cpg-utils
Library of convenience functions specific to the CPG
pubmed-proto
Typed protobuf messages and an XML converter for NLM PubMed XML.
anchorite
Spatial text alignment and resolution for document OCR
seq-smith
A Rust-based sequence alignment library for Python.
sample-metadata
Python API for interacting with the Sample API system
cpg-gnomad
Hail utilities for the Genome Aggregation Database
joint-calling
Pipeline for joint calling, sample and variant QC for WGS germline variant calling data
clinvar-proto
Typed protobuf messages and an XML converter for NCBI ClinVar VCV XML.
