sorgerlab Goto Github PK

2016-10-06-harvard

Website for SWC workshop at Harvard October 6th/7th.

2017-10-30-harvard

Website for SWC workshop at Harvard Medical School, October 30-31 2017.

bayessb

Bayesian model inference and parameter estimation for biological models

bioagents

Biological reasoning agents

biolit

cancerbrowser

HMS LINCS Cancer Browser

cardiotoxdataanalysis

Data processing and analysis for cardiomyocytes treated with TKIs

cheminformatics_tools

General tools and scripts for cheminformatics analysis and processing

cosmic_exploration

Tools to load COSMIC data files into Postgres and explore them

cycif

Processing and analysys for Cyclic Immunofluorescence (CycIF) microscopy images

cycif-benchmarking-docker-ashlar

Docker build for benchmarking ASHLAR for AWS Batch

datarail_archive

Old datarail work -- do not use this!

dlsegmenter

Deep Learning based segmentation approach for tCyCIF images

earm

Extrinsic Apoptosis Reaction Model

eydgahi_et_al_bayesian_estimation

Code and data to support "Properties of cell death models calibrated and compared using Bayesian approaches" by Eydgahi et al.

famplex

Resources for grounding protein families and complexes from text and describing their hierarchical relationships.

famplex_paper

imagerail

indra

INDRA (Integrated Network and Dynamical Reasoning Assembler) is an automated model assembly system interfacing with NLP systems and databases to collect knowledge, and through a process of assembly, produce causal graphs and dynamical models.

indra_apps

indra_assembly_paper

Automated assembly of molecular mechanisms at scale from text mining and curated databases

indra_pathway_map

indra_pertbio

kegg_metabolite_mapping

l1000chdir

L1000 Characteristic Direction

lim_pik3ca

analysis for the manuscript_lim et al 2018

lin_elife_2018_tcycif_plots

Jupyter Notebook for plotting single-cell data from Lin et al. 2018

matlab_dct_orchestra

Matlab Distributed Computing Toolbox workalike for the HMS Orchestra cluster

movie_mosaic

Builds an HTML gallery for an array of static images and associated movie clips.

niepel_2013

breast cancer signaling web project (DEPRECATED -- merged into hmslincs)