Laboratory of Systems Pharmacology @ Harvard

Reinventing the fundamental science underlying the development of new medicines and their use in individual patients.

Boston, MA

Pinned Repositories

ashlar
ASHLAR: Alignment by Simultaneous Harmonization of Layer/Adjacency Registration
Language:Python132 10 9843
cylinter
An Interactive Image Segmentation Filter for Multiplex Microscopy
Language:Python26 4 1412
mcmicro
Multiple-choice microscopy pipeline
Language:Nextflow118 13 24657
minerva-author
Tool to create images and configuration files for Minerva-Story
Language:Python15 4 4314
minerva-story
Minerva Story is an image viewer that is designed specifically to make it easy for non-expert users to interact with complex tissue images.
Language:HTML50 12 7014
minerva_analysis
Language:JavaScript26 9 636
palom
Piecewise alignment for layers of mosaics
Language:Python21 5 84
scimap
Spatial Single-Cell Analysis Toolkit
Language:Python78 3 6626
smallmoleculesuite-old
Language:R15 8 07
visinity
Language:JavaScript16 5 144

Laboratory of Systems Pharmacology @ Harvard's Repositories

labsyspharm/ashlar
ASHLAR: Alignment by Simultaneous Harmonization of Layer/Adjacency Registration
Language:Python132 10 9843
labsyspharm/mcmicro
Multiple-choice microscopy pipeline
Language:Nextflow118 13 24657
labsyspharm/scimap
Spatial Single-Cell Analysis Toolkit
Language:Python78 3 6626
labsyspharm/cylinter
An Interactive Image Segmentation Filter for Multiplex Microscopy
Language:Python26 4 1412
labsyspharm/minerva_analysis
Language:JavaScript26 9 636
labsyspharm/palom
Piecewise alignment for layers of mosaics
Language:Python21 5 84
labsyspharm/minerva-author
Tool to create images and configuration files for Minerva-Story
Language:Python15 4 4314
labsyspharm/CRC_atlas_2022
Language:MATLAB12 5 54
labsyspharm/quantification
Quantification module for mcmicro
Language:Python9 4 2914
labsyspharm/minerva-author-ui
Minerva Author is an authoring tool used to create Minerva narrated stories via selection of specific channel groupings and image views.
Language:JavaScript4 5 35
labsyspharm/minerva-browser
Language:JavaScript4 5 275
labsyspharm/harvardtissueatlas
Harvard Tissue Atlas website
Language:SCSS3 4 76
labsyspharm/cycif.org
cycif.org GitHub Pages Website
Language:JavaScript2 7 169
labsyspharm/vae-paper
Language:Jupyter Notebook2 3 02
labsyspharm/gater
Language:JavaScript1 4 03
labsyspharm/ludwigtumoratlas.org
Ludwig Tumor Atlas website
Language:SCSS11
labsyspharm/omero-oauth
OMERO.web application to allow OAuth2 login to OMERO
Language:Python1 2 02
labsyspharm/ad-personalized
Language:R
labsyspharm/ad-rna-editing
Language:R
labsyspharm/beta-segmentinator
Language:Python3 2
labsyspharm/biospecimen-disease-research-terminology
Clinical disease terminology for annotation of biospecimen records
Language:Python1
labsyspharm/mcmicro-lsp
mcmicro helpers for local use within the LSP (especially O2)
Language:Shell3 0
labsyspharm/mcqc
Quality control module for mcmicro
Language:Python
labsyspharm/mel-3d-mis
Language:MATLAB3 01
labsyspharm/minerva-core-ui
A microscopy viewer for non-experts
Language:TypeScript4 122
labsyspharm/okl-analysis
Language:Python6 0
labsyspharm/plateviewer
Renders HTS microscopy image data into a Minerva Story for visual review
Language:Nextflow
labsyspharm/prostate
Analysis of prostate cancer CyCIF data
Language:R
labsyspharm/sarek-variant-calling-pipeline
Language:Shell
labsyspharm/stic-ms-2024
Custom codes related to Kader, Lin, Hug manuscript 2024
Language:R1