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anchor-high-precision-model-agnostic-explanations

Code for "High-Precision Model-Agnostic Explanations" paper

approaches_confounding_geostatistics

4.Gilbert, Brian, Abhirup Datta, Joan A. Casey, and Elizabeth L. Ogburn. 2023. “A Causal Inference Framework for Spatial Confounding.”

autoencoding_vi_for_topic_models

Tensorflow implementation for prodLDA and NVLDA.

basenji

Sequential regulatory activity predictions with deep convolutional neural networks.

codex

Image processing software for CODEX: driftcompensation, deconvolution, uploading and segmentation

flowsom

Using self-organizing maps for visualization and interpretation of cytometry data

generative-models-vae-slda

Collection of generative models, e.g. GAN, VAE in Pytorch and Tensorflow.

genomic-data-visualization-2022

Course website for Genomic Data Visualization 2022

github-actions

itcr_2023_workshop2_tranle

lda-tutorial

A text mining course for social scientists and digital humanists

lda-tutorial-nlp-with-python

Scikit-Learn, NLTK, Spacy, Gensim, Textblob and more

lda_topical_word_embeddings

A demo code for topical word embedding (Parts of the LDA inference code come from Dr. Hoffman's `onlineldavb.py` script, # (C) 2010 Matthew D. Hoffman, GNU GPL 3.0)

merfish_analysis

Matlab software for the analysis of MERFISH data and the construction of MERFISH probes.

meringue-stdeconvole

characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with nonuniform cellular densities

mrmisteri

Robust Mendelian Randomization Analysis with Invalid IVs

onlineldavb

Online variational Bayes for latent Dirichlet allocation (LDA)

plda

The Penalized LDA (pLDA) Package

stdeconvole

stdeconvolve-1

Reference-free cell-type deconvolution of multi-cellular spatially resolved transcriptomics data