025georgialynny / afib

Miscellaneous Code For Analysis and Data Management of MIT-BIH Atrial Fibrillation Database

afib

Miscellaneous Code For Analysis and Data Management of MIT-BIH Atrial Fibrillation Database

database can be found at: https://physionet.org/physiobank/database/afdb/

wfdb package used for code can be found at: https://archive.physionet.org/physiotools/wfdb-linux-quick-start.shtml

The extraction of afdb was done with Linux Bash Script and all files found in database link

File paths need to be changed in bash, python, and R script to match your directories

runme.sh needs all files found at database link

makesamples.R needs merge*.cxv files found in /oldmerge

rmsamptrans.R needs files found in /mergecurrent and /sampscurrent

merge.py needs *.txt found in /extracted

 atr*.txt is extracted annotations of heartbeat type 
 
 qrs*.txt is extracted RR-Intervals

merge*.csv === new merged files with additional data

           found in /mergecurrent

trans*.csv ==== transition matrices for each full data file

           found in /transcurrent

samps*.csv ==== csv of 45 second samples taken for each individual

            found in /sampscurrent
                includes samps with mix afib/normal readings
            found in /sampsnotrans
                includes only samples with all afib or all non-afib readings

merge:

 RRint, endsample#, annotation, running mean, running seconds, transition(1 = S, 2 = R, 3 = L)

trans:

 S = short (x<.85\*runningmean), R = regular (.85\*runningmean<x<1.15\*runningmean),      
 L = long (x>1.15\*runningmean) where x is rr interval in seconds
    
 Columns = From, Rows = To

samps:

 ID, start sample#, end sample#, length(beats), length(seconds), afib (t/f), proportions of    
 trans matrix(ss, sr, sl, rs, rr, rl ls lr, ll)

Python 2.7.15 was used for compiling

R 3.6.0 was used for R compiling