talonsensei
/ tree_plus_heatmap_example.R
Created
July 5, 2016 17:04
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| library("ggtree") | |
| library("dplyr") | |
| library("colorspace") | |
| #Load Tree data | |
| hc_tree<-structure(list(edge = structure(c(11L, 11L, 12L, 13L, 14L, 15L, | |
| 15L, 14L, 13L, 16L, 17L, 18L, 19L, 19L, 18L, 17L, 16L, 12L, 1L, | |
| 12L, 13L, 14L, 15L, 2L, 3L, 4L, 16L, 17L, 18L, 19L, 5L, 6L, 7L, | |
| 8L, 9L, 10L), .Dim = c(18L, 2L)), Nnode = 9L, tip.label = c("XPA.85.007", | |
| "XPA.85.002", "XPA.85.001", "XPA.85.009", "XPA.85.013", "XPA.85.012", |
talonsensei
/ elapsed_time.py
Created
September 16, 2015 20:00
Display elapsed time in human readable format
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| import time | |
| ############################################### | |
| # Returns elapsed time dynamically formatted # | |
| # to accomodate days, hours, minutes, seconds # | |
| ############################################### | |
| def elapsed_time(start,end): | |
| # For use with time.time() values as start and end | |
| units = [" days "," hours "," minutes ", " seconds"] | |
| delta = end - start |
talonsensei
/ launcher.cc.diff
Created
February 20, 2014 22:04
Diff of launcher.cc from shiny-server showing the changes necessary to make it work on OS X. From https://github.com/nathanweeks/shiny-server/commit/d5240ef6d795dafc89c74a49d6f14d7fe0509541
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| @@ -1,1 +1,1 @@ | |
| /* | |
| * launcher.cc | |
| * | |
| * Copyright (C) 2009-13 by RStudio, Inc. | |
| * | |
| * This program is licensed to you under the terms of version 3 of the | |
| * GNU Affero General Public License. This program is distributed WITHOUT | |
| * ANY EXPRESS OR IMPLIED WARRANTY, INCLUDING THOSE OF NON-INFRINGEMENT, | |
| * MERCHANTABILITY OR FITNESS FOR A PARTICULAR PURPOSE. Please refer to the |
talonsensei
/ global.R
Created
February 20, 2014 17:06
— forked from pssguy/global.R
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| # load required libraries | |
| library(shiny) | |
| library(plyr) | |
| library(ggplot2) | |
| library(googleVis) | |
| library(reshape2) | |
| ####creation of example data on local directory for uploading#### |
talonsensei
/ gist:6371691
Created
August 28, 2013 21:40
Homebrew install of Postgres on Mountain Lion
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| ### Install postgres using Homebrew | |
| nauru:~ kaiju$ brew install postgres | |
| ==> Downloading http://ftp.postgresql.org/pub/source/v9.2.4/postgresql-9.2.4.tar.bz2 | |
| Already downloaded: /Library/Caches/Homebrew/postgresql-9.2.4.tar.bz2 | |
| ==> Patching | |
| patching file src/pl/plpython/Makefile | |
| patching file contrib/uuid-ossp/uuid-ossp.c | |
| ==> ./configure --prefix=/usr/local/Cellar/postgresql/9.2.4 --datadir=/usr/local/Cellar/postgresql/9.2.4/share/postgresql --docdir=/usr/local/Cellar/postgresql/9.2.4/share/doc/postgresql --enable-thread-safety | |
| ==> make install-world |
talonsensei
/ Installing mod_wsgi on Mountain Lion
Created
August 20, 2013 17:20
There are apparently changes Apple made in XCode between Lion and Mountain Lion that cause the standard install method to fail.
The conventional fix that comes up most often in a Google search at the time of this writing is to create a symlink between the new name of a Toolchain folder and the old name that the installer is supposedly looking fo…
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| $ ./configure --with-apxs=/usr/local/Cellar/httpd/2.2.25/sbin/apxs --disable-framework | |
| checking Apache version... 2.2.25 | |
| checking for python... /usr/local/bin/python | |
| configure: creating ./config.status | |
| config.status: creating Makefile | |
| $ make | |
| 26 warnings generated. | |
| /usr/local/Cellar/httpd/2.2.25/share/apache2/build/libtool --silent --mode=link cc -o mod_wsgi.la -rpath /usr/local/Cellar/httpd/2.2.25/libexec -module -avoid-version mod_wsgi.lo -L/usr/local/Cellar/python/2.7.5/Frameworks/Python.framework/Versions/2.7/lib -L/usr/local/Cellar/python/2.7.5/Frameworks/Python.framework/Versions/2.7/lib/python2.7/config -arch x86_64 -lpython2.7 -ldl -framework CoreFoundation |
talonsensei
/ Subset RPy2 dataframes
Created
July 25, 2013 17:32
How to subset RPy2 data frames by single or multiple criteria
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| # By single criteria | |
| subset_frame = dataframe.rx(dataframe.rx2('input_type').ro == 'VALUE', True) | |
| # By Multiple Criteria | |
| subset_frame = all_data_frame.rx((dataframe.rx2('input_type').ro == 'VALUE1').ro & | |
| (dataframe.rx2('data_type').ro == 'VALUE2'), True) |