PoisonAlien maftools issues

PoisonAlien / maftools

Summarize, Analyze and Visualize MAF files from TCGA or in-house studies.

http://bioconductor.org/packages/release/bioc/html/maftools.html

MIT License

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issues

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How to define colors for clinical features that use continuous values

#1053 PoisonAlien opened 1 week ago
1
Error applying colors to continuous clinicalFeatures

#1050 juferban opened 1 week ago
5
Error:long vectors not supported yet: memory.c:3940

#1049 Olsennnnn opened 1 week ago
0
The subsetMaf function is ineffective for screening samples and genes.

#1048 MECHANIC-LIJIAN closed 2 weeks ago
2
Issue with maftools::gtMarkers memory not mapped

#1047 grantn5 opened 1 month ago
0
Error :could not find function "OncogenicPathways"

#1046 HiraDatascience closed 2 weeks ago
3
Why are my lines in the GISTICChromPlot not straight?

#1045 HummelFa opened 1 month ago
0
sampleSwaps Error: Zero SNPs to analyze

#1044 tc86 opened 1 month ago
0
Border of gisticOncoPlot

#1043 maximus3219 closed 4 days ago
1
plotmafsummary mutated gene

#1042 bioinfomatio opened 1 month ago
1
selectedPathways argument in oncoplot not functioning properly with user-defined pathways

#1041 kbrar4013 opened 2 months ago
1
Discrepancy in MATH Scores

#1040 fatemedorri77 closed 2 weeks ago
1
Why is MNP excluded when reading.maf?

#1039 youngbee12 closed 2 weeks ago
1
gisticChromPlot for individual samples

#1038 MaryGoAround closed 6 days ago
2
filterMaf error

#1037 amootta closed 3 weeks ago
2
extractSignatures

#1036 ypmjx123 closed 3 weeks ago
2
unknown tumor_sample_barcode

#1035 ghost closed 1 month ago
1
Error in get_lp_data(maf = m1, geneID = gene, AACol = AACol1, refSeqID = refSeqID, : Structure for protein BAGE3 not found.

#1033 libiqing77 closed 4 weeks ago
3
Fixed Typo in read.maf.Rd

#1032 fabianjkrueger opened 3 months ago
0
Questions about MATH score

#1031 xiw588 closed 4 weeks ago
3
Length zero fix

#1030 eolaniru opened 3 months ago
0
Lollipopplot does not show complete protein length.

#1029 Arnob5105 closed 2 weeks ago
6
sampleSwaps.R: add an error message in case of missing index files

#1028 eolaniru closed 3 months ago
6
Error in if (dist <= mergeDist) { : missing value where TRUE/FALSE needed

#1027 Iononering closed 1 month ago
3
The get_col_df function seems to have a bug in the 6th line

#1026 canna1998 closed 2 weeks ago
3
lollipopPlot（）Report an error：Error in .getdomains(geneID = gene, refSeqID = refSeqID, proteinID = proteinID) : Structure for protein PPDPFL not found.

#1025 yaohuiovo closed 3 months ago
1
Different aa.lengths in lollipopPlot() and lollipopPlot2()

#1019 YarsnC closed 4 months ago
2
TMB plot (tcgaCompare): Burden changes depending on input order

#1018 FriederikeHanssen closed 2 months ago
3
Signature plot

#1017 Ind2022 closed 5 months ago
11
Getting error in lollipop plot

#1016 MaryGoAround closed 5 months ago
3
Running trinucleotideMatrix generates Error in.Call2

#1015 Olsennnnn closed 2 months ago
11
Extracting VAF information apart from plot.

#1014 HiraDatascience closed 3 months ago
4
when adding cntable to maf tools object, if no mutations in gene the Start_Position End_Position are blank leading to errors

#1013 grantn5 closed 4 months ago
5
survGroup minSample option

#1012 ccarloscr closed 3 months ago
2
Incomplete population of labels in coGisticChromPlot; overlapping of labels that do populate

#1011 Ericlassiter closed 3 months ago
2
clinicalEnrichment Error: Object 'Analysis' not found amongst []

#1010 ezhang113 closed 6 months ago
7
is it possible to create a gisticChromPlot using mouse data?

#1009 FerTalavera closed 4 months ago
2
Lollipop plots

#1008 shhabnsbwjd closed 4 months ago
5
Error in sub(re, "", x, perl = TRUE) : input string 78 is invalid UTF-8 in subsetMaf

#1007 ConYel closed 6 months ago
9
extra space somaticInteractions

#1006 xiw588 closed 4 months ago
3
Plot is being masked by a white layer

#1005 manwarA closed 4 months ago
4
change Tumor_Sample_Barcode for gisticOncoPlot

#1004 dansteiert closed 8 months ago
1
can "is.na" expression be part of a query for subsetMaf?

#1003 xguijarro closed 8 months ago
1
can "is.na" expression be part of a query for subsetMaf?

#1002 xguijarro closed 5 months ago
2
A very little bug: When passing more than one name to the ‘gene’ parameter of ‘lollipopPlot2’, it passes back an overlapping plot

#1001 WangYe661 closed 8 months ago
0
cannot use trinucleotideMatrix function: error in .Call2

#1000 thscandolara closed 9 months ago
2
Cannot use function named "coGisticChromPlot"

#999 XinpeiYi closed 9 months ago
2
an splice_region variant does not appear in the oncoplot

#998 FerTalavera closed 8 months ago
12
BUG: subsetMAF functions returns wrong data

#997 WangYe661 closed 8 months ago
7
BUG: subsetMAF function returns wrong data

#996 WangYe661 closed 9 months ago
0