Shintaro Katayama shka

## NBGLM-LBC.md

      
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              August 30, 2022 14:19
            
              
                Library bias correction for multiplex RNAseq
              
          
    NBGLM-LBC

Library bias correction for highly multiplexed RNAseq based on a negative binomial generalized linear model.

Primary: https://shka.github.io/NBGLM-LBC
Mirror: https://shka.bitbucket.io/NBGLM-LBC

Requirements


## tfe_annotation.rb
#!/usr/bin/env ruby

# tfe_annotation.rb <kgXref.gz> <knownGene.gz> <tfe.bed> :: shintaro.katayama at gmail.com

file_kgXref = ARGV[0]
file_knownGene = ARGV[1]
file_TFE = ARGV[2]

# UCSC Known Genes accession to gene symbol
acc2sym = Hash.new

## emacs_server.el
;; Server
(require 'server)
(unless (server-running-p) (server-start))
(global-set-key (kbd "C-x C-c") 'ns-do-hide-emacs)
(defalias 'exit 'save-buffers-kill-emacs)

## platypus_emacsclient.sh
echo osascript -e \'tell application \"Emacs\" to activate\'\; emacsclient -c \"\$@\" | platypus -o None -i /usr/local/Cellar/emacs/24.3/Emacs.app/Contents/Resources/Emacs.icns -B -R - /Applications/EmacsClient.app

## platypus_emacs.sh
echo '/usr/local/Cellar/emacs/24.3/Emacs.app/Contents/MacOS/Emacs &' | platypus -o None -i /usr/local/Cellar/emacs/24.3/Emacs.app/Contents/Resources/Emacs.icns -B -R - /Applications/Emacs.app
	#!/usr/bin/env ruby

	# tfe_annotation.rb <kgXref.gz> <knownGene.gz> <tfe.bed> :: shintaro.katayama at gmail.com

	file_kgXref = ARGV[0]
	file_knownGene = ARGV[1]
	file_TFE = ARGV[2]

	# UCSC Known Genes accession to gene symbol
	acc2sym = Hash.new
	;; Server
	(require 'server)
	(unless (server-running-p) (server-start))
	(global-set-key (kbd "C-x C-c") 'ns-do-hide-emacs)
	(defalias 'exit 'save-buffers-kill-emacs)