Nik-Zainal-Group signature.tools.lib issues

Nik-Zainal-Group / signature.tools.lib

R package containing useful functions for mutational signature analysis

Other

80 stars 26 forks source link

issues

Newest

Newest Most commented Recently updated Oldest Least commented Least recently updated

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

#58 selkamand closed 11 months ago
4
bedpeToRearrCatalogue will crash if it filters out all variants

#57 felixbeaudry closed 9 months ago
2
Updated Dockerfile.

#56 janczarn closed 11 months 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Outdated function call when using devtools::test()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 1 year 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 1 year 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 3 years ago
5
Does SignatureExtraction() function support automatically selection of number of mutational signatures

#23 WuyangFF95 closed 3 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 3 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