Pinned Repositories
ActiveUnetSegmentation
Unet implementation to work with active contours for segmentations. Using keras and tensorflow 1.15 or 2.5.
cbias-napari
Introduction to Napari training course
Etch-a-Cell-Nuclear-Envelope
napari-tutorial
Modular course teaching the use of napari for image visualisation and analysis
network_borg_blog
Network Borg Blog - Resistance is futile *** Blog Edition - Not Maintained! ***
OmeSliCC
Ome(ro) SLide Image Conversion and Compression pipline (OmeSliCC)
py-imcyto
IMC segmentation in python.
sparks
TRACERx-PHLEX
Modular pipeline for integrated analysis of the tumour microenvironment using multiplex imaging
warpAnnotations
A tool to transform annotations (such as points, skeletons or meshes) between spatial datasets.
The Francis Crick Institute's Repositories
FrancisCrickInstitute/cbias-napari
Introduction to Napari training course
FrancisCrickInstitute/warpAnnotations
A tool to transform annotations (such as points, skeletons or meshes) between spatial datasets.
FrancisCrickInstitute/py-imcyto
IMC segmentation in python.
FrancisCrickInstitute/network_borg_blog
Network Borg Blog - Resistance is futile *** Blog Edition - Not Maintained! ***
FrancisCrickInstitute/PEACE_melanoma_14_paper
FrancisCrickInstitute/deep-imcyto
Nextflow pipeline for IMC segmentation tasks.
FrancisCrickInstitute/plateplot
Python library for plotting microtitre plates in altair / vega-lite
FrancisCrickInstitute/vhl_snRNAseq
Analysis code for VHL tumour snRNAseq datasets from TRACERx renal
FrancisCrickInstitute/AmmariMonaca2023
FrancisCrickInstitute/network_invsync
Verify ISE and YAML inventory are synchronized
FrancisCrickInstitute/Spatial-PHLEX
Nextflow pipeline for IMC spatial data methods.
FrancisCrickInstitute/TYPEx
Deep cell phenoTYPE characterisation using multipleX imaging
FrancisCrickInstitute/UK_TRE
For documents and activity records completed within Working Groups lead by Pete Barnsley (Francis Crick Institute) within the UK TRE community
FrancisCrickInstitute/Bar_seq
FrancisCrickInstitute/Behavioural_board
FrancisCrickInstitute/Cavro_pumps_script_
FrancisCrickInstitute/CLAM
Data-efficient and weakly supervised computational pathology on whole slide images - Nature Biomedical Engineering
FrancisCrickInstitute/Cxcl13_project
FrancisCrickInstitute/DNA_Cohesin_MMC
FrancisCrickInstitute/Four_channel_syringe_pump
Four-channel syringe pump with radial distribution for 10 mL syringes
FrancisCrickInstitute/LCD-screen-Backlight-LED-External-control-circuit
Circuit to control the flickering frequency of LCD displays with an external signal
FrancisCrickInstitute/LowPassKaryotyping
An R pipeline to process low pass whole genome sequencing and call copy number variation
FrancisCrickInstitute/mito-synapto-spine-analysis
FrancisCrickInstitute/MT_Force_Spindle
Public codes for Chu et al.,
FrancisCrickInstitute/Photobleaching
FrancisCrickInstitute/plaque_assay
Analysis code for covid-19 serology neutralisation assay.
FrancisCrickInstitute/SlideSeq
FrancisCrickInstitute/snRNAseq_workflow
FrancisCrickInstitute/wack-lab
FrancisCrickInstitute/Yeast-Oris
Genomic origins-of-replication and ROC motif co-cooccurrence analysis in yeast