Genentech

scimilarity

A unifying representation of single cell expression profiles that quantifies similarity between expression states and generalizes to represent new studies without additional training.

polygraph

Polygraph evaluates and compares groups of nucleic acid sequences based on their sequence and functional content for effective design of regulatory elements.

covtracer

Tools for contextualizing tests, built using covr test traces.

regLM

Toolkit for training hyenaDNA-based autoregressive language models on DNA sequences.

jmpost

psborrow2

psborrow2: Bayesian Dynamic Borrowing Simulation Study and Analysis

GameRank

midasHLA

R package enabling statistical association analysis and using immunogenetic data transformation functions for HLA amino acid fine mapping, analysis of HLA evolutionary divergence as well as HLA-KIR interactions.

ringer

RINGER: Rapid Conformer Generation for Macrocycles with Sequence-Conditioned Internal Coordinate Diffusion

SASS

Perturb-OT

Cross-modality matching and prediction with labeled Gromov-Wasserstein Optimal Transport.

beignet

A standard library for biological research.

Islander

voxmol

cremp

CREMP: Conformer-Rotamer Ensembles of Macrocyclic Peptides for Machine Learning

spex

spex_bundle

spex_frontend

Automated-tumor-immunophenotyping-predicts-clinical-benefit-from-anti-PD-L1-immunotherapy

set-dino

spex_backend

spex_clustering

spex_common

spex_ms_job_manager

spex_ms_omero_image_downloader

spex_ms_omero_sessions

spex_ms_pipeline_manager

spex_segmentation

spex_spatial_transcriptomics

stats4phc

Performance evaluation for the prognostic value of predictive models intended to support personalized healthcare through predictiveness curves and positive / negative predictive values.