FrancisCrickInstitute/TRACERx-PHLEX FrancisCrickInstitute/TRACERx-PHLEX

  • Stars
    star
    8
  • Rank 2,088,262 (Top 42 %)
  • Language
    Shell
  • License
    MIT License
  • Created about 2 years ago
  • Updated 3 months ago
Twitter logo Share LinkedIn logo Share Facebook logo Share
FrancisCrickInstitute/TRACERx-PHLEX
github

FrancisCrickInstitute

Reviews

There are no reviews yet. Be the first to send feedback to the community and the maintainers!

Repository Details

Modular pipeline for integrated analysis of the tumour microenvironment using multiplex imaging

More Repositories

1

Etch-a-Cell-Nuclear-Envelope

Python
8
star
2

OmeSliCC

Ome(ro) SLide Image Conversion and Compression pipline (OmeSliCC)
Python
7
star
3

ActiveUnetSegmentation

Unet implementation to work with active contours for segmentations. Using keras and tensorflow 1.15 or 2.5.
Python
5
star
4

cbias-napari

Introduction to Napari training course
Jupyter Notebook
5
star
5

warpAnnotations

A tool to transform annotations (such as points, skeletons or meshes) between spatial datasets.
MATLAB
5
star
6

py-imcyto

IMC segmentation in python.
Jupyter Notebook
4
star
7

napari-tutorial

Modular course teaching the use of napari for image visualisation and analysis
4
star
8

PEACE_melanoma_14_paper

R
3
star
9

babs_uv_polymerase

Simulator of polymerase dynamics during UV damage and repair
Julia
3
star
10

network_borg_blog

Network Borg Blog - Resistance is futile *** Blog Edition - Not Maintained! ***
Python
3
star
11

spherical-phenotype-clustering

Python
2
star
12

Network_Automation_with_Nornir

Network Automation with Nornir
Python
2
star
13

plateplot

Python library for plotting microtitre plates in altair / vega-lite
Python
2
star
14

Making-Lab-Repositories

2
star
15

vanMaldegem_Valand_2021

Code associated with Van Maldegem & Valand et al. 2021, for the analysis of Imaging Mass Cytometry data
R
2
star
16

protocolBLAST

Sample preparation and warping accuracy for correlative multimodal imaging in the mouse olfactory bulb using two-photon, synchrotron X-ray and volume electron microscopy
Jupyter Notebook
2
star
17

Segment-Flow

Nextflow pipeline for deep learning segmentation models
Python
2
star
18

Spherical_treadmill

C++
1
star
19

mitoem-challenge

Python
1
star
20

TRACERxIMCSpillover

Spillover plugins for TRACERx imaging mass cytometry data analysis, adapted from Chevrier et al 2018.
R
1
star
21

Lattke_et_al_Astrocyte_Maturation

R
1
star
22

DESdemonA

BABS template R script for processing bulk RNASeq data
R
1
star
23

MSTPump

Open source syringe pump
C++
1
star
24

pcr-lambda-test

Python
1
star
25

Electronics-Course-Material

Examples and course material
C++
1
star
26

RAS84_classification

R script to classify lung adenocarcinoma transcriptomes using RAS84 transcriptional signature SVM.
R
1
star
27

Cole_2024

Code associated with Cole et al. 2024
R
1
star
28

StepperController

Controller board for stepper motors
1
star
29

vhl_snRNAseq

Analysis code for VHL tumour snRNAseq datasets from TRACERx renal
R
1
star
30

4-Stepper-motor-control-board

Board to control 4 stepper motors based on the Teesny 3.5 dev. board. It has a small OLED display and 4 rotary encoders with switch and 2 DAC outputs in BNC connectors.
C++
1
star
31

babs_recruit_2021

Recruitment questions for 2021 vacancy
R
1
star
32

RAS84

Analysis code associated with the development of RAS84, a curated RAS transcriptional signature.
R
1
star
33

Tetrode_plater_breakout_board

1
star
34

network-syslog-summary

Summarise syslog-ng format Cisco logs and graph count. Post results to Slack.
Python
1
star
35

deep-imcyto

Nextflow pipeline for IMC segmentation tasks.
Python
1
star
36

tumour-growth-patterns-impact-evolution

Agent-based modelling reveals the impact of growth patterns on spatial and temporal features of clonal diversification. A GitHub repository of the Source Code for the model and Source Data for the figures of the paper.
Cuda
1
star