# ua-bioinfo-survey

The code in this repository is associated with the paper, [Bioinformatic training needs at a health sciences campus](http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0179581).

## Directories

| Directory Name | Description |
|--------------- |:------------------------------------------------------------------------|
| code           | scripts for running analyses and producing graphics|
| data           | raw data from survey |
| output         | product of code, such as formatted data and pdf figures; contents not under version control|


### code

| Script name                            | Description |
|:---------------------------------------|:------------------------------------------------------------------------|
| analyses-bioinfo-interest.R            | general assessment of interest in bioinformatics |
| analyses-demographics.R                | basic demographics of respondents |
| analyses-format-prefs.R                | test for significant preference in training format|
| analyses-informatic-v-analytical.R     | test for difference in preferences between two broad categories of topics|
| analyses-library-resource-use.R        | test for differential use of library resources |
| analyses-response-through-time.R       | responses through time, in relation to e-mail reminders |
| analyses-scripting-dispersion.R        | distribution of preferences for scripting training |
| analyses-topic-preference-sums.R       | sum of preference scores (Likert scale) |
| analyses-topic-preferences.R           | test for significant preference difference among training topics; includes test for significant overall preference difference among three position types (faculty, staff, student)|
| analyses-topic-preferences-by-position | testing for preference differences among topics in separate analyses for each position type (faculty, staff, student) |
| data-processing.R | data processing of raw results into format for all downstream analyses |
| graphs-format-preferences.R | graphing training format preferences |
| graphs-response-through-time.R | graphing responses through time |
| graphs-topic-correlations.R | graphing correlation among training topics |
| graphs-topic-interests.R | graphing topic interest levels |


### data

| Filename      | Description |
|:---------------------------- |:------------------------------------------------------------------------|
| survey-results-processed.txt | tab-delimited text file of survey results, some cleaning of Qualtrics output occurred (e.g. standardizing college names).|

There is some additional processing by `code/data-processing.R`, which produces 
a data frame called `results`, stored in `output/results-processed.RData`. That 
file should be loaded for all downstream analyses (rather than using the 
original, raw data).


## Additional packages

The following packages are used in one or more scripts and should be installed 
before attempting to run this code:

```r
install.packages(c('dplyr', 'ggplot', 'plyr', 'MASS', 'tidyr'))
```