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dchakro 2020-08-25 07:44:54 +03:00
parent d4465971e0
commit 5fc69023a4
5 changed files with 20 additions and 15 deletions
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6
CT_GA_count.R
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@ -7,9 +7,9 @@ CT_GA_count <- function(SampleID,Ref_Base,Alt_Base){
# # Please read and abide by the terms of the included LICENSE. # # Please read and abide by the terms of the included LICENSE.
# # Copyright 2020, Deepankar Chakroborty, All rights reserved. # # Copyright 2020, Deepankar Chakroborty, All rights reserved.
# # # #
# # Author : Deepankar Chakroborty (https://gitlab.utu.fi/deecha) # # Author : Deepankar Chakroborty (https://github.com/dchakro)
# # Report issues: https://gitlab.utu.fi/deecha/shared_scripts/-/issues # # Report issues: https://github.com/dchakro/shared_Rscripts/issues
# # License: https://gitlab.utu.fi/deecha/shared_scripts/-/blob/master/LICENSE # # License: https://github.com/dchakro/shared_Rscripts/blob/master/LICENSE
# #<----------------------------> # #<---------------------------->
# # PURPOSE: # # PURPOSE:

6
IsolateCanonicalVariant.R
View file

@ -11,9 +11,9 @@ IsolateCanonicalVariant <- function (AAchangeAnnotations){
# # Please read and abide by the terms of the included LICENSE. # # Please read and abide by the terms of the included LICENSE.
# # Copyright 2020, Deepankar Chakroborty, All rights reserved. # # Copyright 2020, Deepankar Chakroborty, All rights reserved.
# # # #
# # Author : Deepankar Chakroborty (https://gitlab.utu.fi/deecha) # # Author : Deepankar Chakroborty (https://github.com/dchakro)
# # Report issues: https://gitlab.utu.fi/deecha/shared_scripts/-/issues # # Report issues: https://github.com/dchakro/shared_Rscripts/issues
# # License: https://gitlab.utu.fi/deecha/shared_scripts/-/blob/master/LICENSE # # License: https://github.com/dchakro/shared_Rscripts/blob/master/LICENSE
# #<----------------------------> # #<---------------------------->

11
MutSiteFind.R
View file

@ -11,9 +11,9 @@ MutSiteFind <- function(MutationColumn){
# # Please read and abide by the terms of the included LICENSE. # # Please read and abide by the terms of the included LICENSE.
# # Copyright 2020, Deepankar Chakroborty, All rights reserved. # # Copyright 2020, Deepankar Chakroborty, All rights reserved.
# # # #
# # Author : Deepankar Chakroborty (https://gitlab.utu.fi/deecha) # # Author : Deepankar Chakroborty (https://github.com/dchakro)
# # Report issues: https://gitlab.utu.fi/deecha/shared_scripts/-/issues # # Report issues: https://github.com/dchakro/shared_Rscripts/issues
# # License: https://gitlab.utu.fi/deecha/shared_scripts/-/blob/master/LICENSE # # License: https://github.com/dchakro/shared_Rscripts/blob/master/LICENSE
# #<----------------------------> # #<---------------------------->
@ -25,7 +25,12 @@ MutSiteFind <- function(MutationColumn){
# # (i.e. returns only the start position) # # (i.e. returns only the start position)
# # USAGE:
# # AA.pos <- as.integer(MutSiteFind(mut))
return(unlist(x = stringi::stri_extract_first_regex(str = MutationColumn,pattern = "[[:digit:]]+"), use.names = F)) return(unlist(x = stringi::stri_extract_first_regex(str = MutationColumn,pattern = "[[:digit:]]+"), use.names = F))
} }

6
ggplotBreaks.R
View file

@ -5,9 +5,9 @@ ggplotBreaks <- function(range,tick,skip.steps=0){
# # Please read and abide by the terms of the included LICENSE. # # Please read and abide by the terms of the included LICENSE.
# # Copyright 2020, Deepankar Chakroborty, All rights reserved. # # Copyright 2020, Deepankar Chakroborty, All rights reserved.
# # # #
# # Author : Deepankar Chakroborty (https://gitlab.utu.fi/deecha) # # Author : Deepankar Chakroborty (https://github.com/dchakro)
# # Report issues: https://gitlab.utu.fi/deecha/shared_scripts/-/issues # # Report issues: https://github.com/dchakro/shared_Rscripts/issues
# # License: https://gitlab.utu.fi/deecha/shared_scripts/-/blob/master/LICENSE # # License: https://github.com/dchakro/shared_Rscripts/blob/master/LICENSE
# #<----------------------------> # #<---------------------------->

6
unparalogMutations.R
View file

@ -11,9 +11,9 @@ unparalog <- function(DATA, paralog_separator = ";", annotation_separator = ",",
# # Please read and abide by the terms of the included LICENSE. # # Please read and abide by the terms of the included LICENSE.
# # Copyright 2020, Deepankar Chakroborty, All rights reserved. # # Copyright 2020, Deepankar Chakroborty, All rights reserved.
# # # #
# # Author : Deepankar Chakroborty (https://gitlab.utu.fi/deecha) # # Author : Deepankar Chakroborty (https://github.com/dchakro)
# # Report issues: https://gitlab.utu.fi/deecha/shared_scripts/-/issues # # Report issues: https://github.com/dchakro/shared_Rscripts/issues
# # License: https://gitlab.utu.fi/deecha/shared_scripts/-/blob/master/LICENSE # # License: https://github.com/dchakro/shared_Rscripts/blob/master/LICENSE
# #<----------------------------> # #<---------------------------->