danamlewis / analysis_tools

analysis_tools

Note: this repository is primarily deprecated/hosted elsewhere. The first three tools live in this repo. The last two are actually hosted over at https://github.com/danamlewis/OpenHumansDataTools with more details & documentation, and they now achieve the same purpose of the first three.

Tool 1: parseTimeinLoop.py

parseTimeinLoop is a script to analyze how long someone has been using a DIY closed loop. Input file is a two-file with memberID in column A and looping start date in column B, e.g. "date.xlsx"

To run parseTimeinLoop.py:

./parseTimeinLoop.py date.xlsx

Example output:

Tool 2: timeSpent.py

timeSpent.py is a script to analyze time in range, with input variables of the range. Optional file for determining time in range before/after starting a DIY closed loop.

Notes

• You may need to update or install python 3.
• You will likely also need to install xlrd. (To do so, download and unzip it; then from the command line cd into the directory, and run python3 setup.py install

To run timeSpent.py:

python3 ./timeSpent.py ~/analysis_tools/bin/ 80 180 ~/analysis_tools/bin/date.xlsx (using the example where the range is 80-180 mg/dL and the optional looping start date file is date.xlsx)

Example output to calculate time in range and print in terminal

(Note the commented out code which can be edited to use with outputTIR.sh to output into CSV file instead for multiple users)

Tool 3: outputTIR.sh

outputTIR.sh is a shell script to run timeSpent.py in a larger directory of OpenHumans data, and output the data with the MemberID and headers in one CSV folder at the top of the directory.

To run outputTIR.sh

./outputTIR.sh from the directory with data

Example output:

Tool 4: howmuchBGdata.sh (See OpenHumansDataTools)

See https://github.com/danamlewis/OpenHumansDataTools/blob/master/README.md#tool-5-assess-amount-of-looping-data for more details on this script to assess amount of BG data, and a companion script for assessing looping time.

Tool 5: outcomes.sh (See OpenHumansDataTools)

See https://github.com/danamlewis/OpenHumansDataTools/blob/master/README.md#tool-6-outcomes, for this script to analyze data range of entries & device status data; calculates % TIR and Readings in range plus average glucose for the entries data where people are looping. (Aka, this analyzes the post-looping outcomes).