data-analysis

Interactive app for time-course data of your kids' meet scores

Kazu Nozue / 2018-11-06
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Shiny package in R language can create a fantastic application in interactive mode using a browser (for free!). In an example below, you can download data file for four years of figure records in US junior olympics of synchronized swimming (public available data from USA synchro web site, compiled …
data-analysis

Another plant defense hormone is required for responses to light in plant

Kazu Nozue / 2018-10-26
Plants use light as energy source as well as signals for environmental signal changes. Under the canopy shade phtosynthesis activity is reduced, therefore plants responded to existance of neighboring plants that causes near future crisis, such as growing taller and flowering earlier to produce seeds …
data-analysis

DGE clustering with ggplot2

Kazu Nozue / 2018-10-24
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Hierarchical clustering is powerful method to classify gene expression pattern. Here I applied a method develped by an example of plotly. […] # install.packages('ggdendro') library(tidyverse);library(ggdendro);library(plotly) Reading expression value # reading gene expression value …
data-analysis

Over-representation analysis 3: GOseq with GO term in non-model organisms

Kazu Nozue / 2018-10-17
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Please prepare […] library(tidyverse);library(readr);library(readxl) ## ── Attaching packages ───────────────────────────────────── tidyverse 1.2.1 ── ## ✔ ggplot2 3.1.0 ✔ purrr 0.2.5 ## ✔ tibble 1.4.2 ✔ dplyr 0.7.7 ## ✔ tidyr 0.8.2 ✔ stringr 1.3.1 ## ✔ readr 1.1.1 ✔ forcats 0.3.0 ## ── …
data-analysis

Over-representation analysis 2: GOseq using custom categories

Kazu Nozue / 2018-10-10
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Most updated annotation can be downloaded from TAIR website (for subscribers). I used “TAIR Data 20180630”. library(tidyverse);library(readxl);library(readr) ## ── Attaching packages ───────────────────────────────────── tidyverse 1.2.1 ── ## ✔ ggplot2 3.1.0 ✔ purrr 0.2.5 ## ✔ tibble 1.4.2 ✔ dplyr …
data-analysis

Over-representation analysis 5: useful tools

Kazu Nozue / 2018-10-07