Nik-Zainal-Group signature.tools.lib issues

Nik-Zainal-Group / signature.tools.lib

R package containing useful functions for mutational signature analysis

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issues

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lung cancer samples mislabelled as cervical cancer in similar sample pie [https://signal.mutationalsignatures.com/]

#58 selkamand closed 1 year ago
4
bedpeToRearrCatalogue will crash if it filters out all variants

#57 felixbeaudry closed 10 months ago
2
Updated Dockerfile.

#56 janczarn closed 1 year ago
1
Outdated function call when using devtools::test()

#55 RPdavies closed 1 year ago
2
Support for conda-forge / bioconda

#54 biolancer opened 1 year ago
2
Adjusting Y-axis limits in plotRearrSignatures()

#53 nash5202 opened 1 year ago
1
Conversion matrix to convert de novo signatures into reference signature exposures

#52 jinmeshuo closed 1 year ago
3
errors in genomeChartSV

#51 tischfis closed 1 year ago
4
.

#50 gt7901b closed 1 year ago
0
eHRDetect

#49 ruolin closed 1 year ago
1
Signature file for environmental mutatagens

#48 kw10 closed 1 year ago
2
Command to download github repo

#47 declan93 closed 2 years ago
1
silhouette not calculated correctly for pam

#46 ze97286 closed 2 years ago
2
maxRareSigsPerSample parameter not reflected in outputs

#45 timchu90 closed 2 years ago
4
Rmarkdown Vignette for signature tools

#44 nroak closed 2 years ago
2
SignatureExtraction: invalid 'times' argument

#43 gevro closed 1 year ago
3
SignatureExtraction: matching to catalogue signatures

#42 gevro opened 2 years ago
1
FitMS: commonSignatures and rareSignatures parameters

#41 gevro closed 2 years ago
1
Non-cancer (healthy) tissues

#40 gevro closed 2 years ago
2
Signature 3 looks quite different on signal vs. cosmic signature 3?

#39 ipstone closed 2 years ago
2
Use with other reference genomes

#38 gevro closed 2 years ago
6
Choosing the correct number of rearrangement signatures utilizing SilWid and norm.Error

#37 riazgillani closed 2 years ago
1
getting same values for SV3 and SV5 across multiple samples

#36 anoronh4 closed 2 years ago
2
Rearrangement signature R5 in pancreas

#35 felixbeaudry closed 2 years ago
2
CNV Input file question

#34 disulfidebond closed 2 years ago
5
R package versioning and tagging

#33 pdiakumis closed 2 years ago
2
Input Files Required

#32 nicoleversetwo closed 2 years ago
2
bedpeToRearrCatalogue clarification (starting from GRIDSS somatic vcf)

#31 john-alexander closed 2 years ago
2
SignatureFit_withBootstrap advice

#30 ahwanpandey closed 2 years ago
3
does not work with Windows?

#29 ahwanpandey closed 3 years ago
8
the chrTextColor and gridLineColor is swapped in the RCircos.Chromosome.Ideogram.Plot.my function

#28 ipstone closed 2 years ago
2
Signal Signature Networks

#27 annahoge closed 3 years ago
3
1kb size filter of SVs

#26 annahoge closed 3 years ago
3
Understanding the samples x signature exposures table

#25 annahoge closed 3 years ago
2
fix a small bug in HRDetect.R when using Indels_tab_files

#24 ipstone closed 4 years ago
5
Does SignatureExtraction() function support automatically selection of number of mutational signatures

#23 WuyangFF95 closed 4 years ago
3
Conda version of signature.tools.lib available

#22 pdiakumis closed 2 years ago
1
variant caller for SNV, INDEL, CNV

#21 Taekya closed 4 years ago
1
enable TAB Indel inputs in HRDetect_pipeline

#20 ALysaght closed 4 years ago
2
Cannot Run HRDetect_pipeline function

#19 MariaCartolano closed 4 years ago
2
"object 'expected_chroms' not found"

#18 slw287r closed 4 years ago
1
Guidance for function SignatureExtraction and the plot interpretation

#17 Huan-Wang-S4 closed 4 years ago
2
SV caller and filtering stratgy

#16 snashraf closed 4 years ago
8
Dependency 'NNLM' is not available

#15 pdiakumis closed 4 years ago
3
SignatureFit_withBootstrap_Analysis plot issue

#14 jorisvdhaar closed 2 years ago
7
Can I still use my data for your software

#13 beginner984 closed 4 years ago
4
Tissue-specific Signatures Example for User Guide

#12 DarioS closed 4 years ago
2
Plot Signatures Missing Substitution Text

#11 DarioS opened 4 years ago
4
Obtaining the percentage of mutations associated with each signature

#10 beginner984 closed 4 years ago
1
Confusion in bedpeToRearrCatalogue.Rd

#9 DarioS closed 4 years ago
3