Personal Cancer Genome Reporter
stable
Table of Contents
About
Getting started
FAQ
PCGR annotation resources
Input
Output
Tier models
CHANGELOG
Personal Cancer Genome Reporter
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Welcome to Personal Cancer Genome Reporter’s documentation!
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Welcome to Personal Cancer Genome Reporter’s documentation!
¶
Table of Contents
About
What is the Personal Cancer Genome Reporter (PCGR)?
Example reports
Why use PCGR?
Docker-based technology
Contact
Getting started
STEP 0: Python
STEP 1: Installation of Docker
STEP 2: Download PCGR and data bundle
STEP 3: Input preprocessing
STEP 4: Configure your PCGR workflow
STEP 5: Run example
FAQ
PCGR annotation resources
Basic variant consequence annotation
Insilico
predictions of effect of coding variants
Variant frequency databases
Variant databases of clinical utility
Protein domains/functional features
Knowledge resources on gene and protein targets
Pathway databases
Notes on variant annotation datasets
Input
VCF
Copy number segments
PCGR configuration file
Output
Interactive HTML report (flexdashboard)
Interactive HTML report (rmarkdown)
JSON
Output files - somatic SNVs/InDels
Output files - somatic copy number aberrations
Tier models
pcgr_acmg
CHANGELOG
0.9.1 - November 30th 2020
0.9.0rc - September 24th 2020
0.8.4 - November 18th 2019
0.8.3 - October 14th 2019
0.8.2 - Sep 29th 2019
0.8.1 - May 22nd 2019
0.8.0 - May 20th 2019
0.7.0 - Nov 27th 2018
0.6.2.1 - May 14th 2018
0.6.2 - May 9th 2018
0.6.1 - May 2nd 2018
0.6.0 - April 25th 2018
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v: stable
Versions
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stable
v0.9.1
v0.8.4
v0.8.2
v0.8.1
v0.7.0
v0.6.2.1
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