respiratory_pilot

Read in TDT files analyze resp data.

notes for furture self

created repository with gitignore file and read me file gitignore is a file used to make sure data is not deposited to github we can add different file types to be ignored by adding the file type to the ignore list e.g. *.mp4 using astrix astrix are place holders that anything before is ok but anything after will be ignored readme will explain the notebook resp env was created with python required for spikeinterface is 3.10.9 numpy verison is rewuired is 1.26.4

Environment Setup

A Conda environment file (environment.yml) is included for reproducibility.

Create the environment

conda env create -f environment.yml
conda activate biopipeline-env

ctrl+shift+l then backspace this is a cell control funtion that allows me to edit my cell info by being able to erase the same words in a line and then type in those line the word i want to replace

Name		Name	Last commit message	Last commit date
Latest commit History 113 Commits
Keypoint_Overlay		Keypoint_Overlay
breathmetrics_python-main		breathmetrics_python-main
figs		figs
notebooks		notebooks
src		src
.gitignore		.gitignore
4BLoutput.png		4BLoutput.png
AIM1_test_rec.ipynb		AIM1_test_rec.ipynb
Aim1analysis.ipynb		Aim1analysis.ipynb
Comparing_3versions_load_clean_resp_signal.ipynb		Comparing_3versions_load_clean_resp_signal.ipynb
IBI_percent_RI1vRI2_anogentialsniff.ipynb		IBI_percent_RI1vRI2_anogentialsniff.ipynb
IBI_percent_RI1vRI2_anogentialsniff_SA_pre_during_post.ipynb		IBI_percent_RI1vRI2_anogentialsniff_SA_pre_during_post.ipynb
IBI_percent_RI1vRI2_anogentialsniff_Sub_pre_during_post.ipynb		IBI_percent_RI1vRI2_anogentialsniff_Sub_pre_during_post.ipynb
IBI_percent_RI1vRI2_body_sniff_SA_int.ipynb		IBI_percent_RI1vRI2_body_sniff_SA_int.ipynb
IBI_percent_RI1vRI2_body_sniff_SA_pre_during_post.ipynb		IBI_percent_RI1vRI2_body_sniff_SA_pre_during_post.ipynb
IBI_percent_RI1vRI2_body_subj_sniff.ipynb		IBI_percent_RI1vRI2_body_subj_sniff.ipynb
IBI_percent_RI1vRI2_body_subj_sniff_pre_during_post_.ipynb		IBI_percent_RI1vRI2_body_subj_sniff_pre_during_post_.ipynb
IBI_percent_RI1vRI2_facesnif_SA_pre_during_post.ipynb		IBI_percent_RI1vRI2_facesnif_SA_pre_during_post.ipynb
IBI_percent_RI1vRI2_facesniff copy 2.ipynb		IBI_percent_RI1vRI2_facesniff copy 2.ipynb
IBI_percent_RI1vRI2_facesniff copy 3.ipynb		IBI_percent_RI1vRI2_facesniff copy 3.ipynb
IBI_percent_RI1vRI2_facesniff copy 4.ipynb		IBI_percent_RI1vRI2_facesniff copy 4.ipynb
IBI_percent_RI1vRI2_facesniff copy 5.ipynb		IBI_percent_RI1vRI2_facesniff copy 5.ipynb
IBI_percent_RI1vRI2_facesniff copy 6.ipynb		IBI_percent_RI1vRI2_facesniff copy 6.ipynb
IBI_percent_RI1vRI2_facesniff copy 7.ipynb		IBI_percent_RI1vRI2_facesniff copy 7.ipynb
IBI_percent_RI1vRI2_facesniff copy 8.ipynb		IBI_percent_RI1vRI2_facesniff copy 8.ipynb
IBI_percent_RI1vRI2_facesniff copy.ipynb		IBI_percent_RI1vRI2_facesniff copy.ipynb
IBI_percent_RI1vRI2_facesniff.ipynb		IBI_percent_RI1vRI2_facesniff.ipynb
IBI_percent_RI1vRI2_facesniff_SA.ipynb		IBI_percent_RI1vRI2_facesniff_SA.ipynb
IBI_percent_RI1vRI2_facesniff_sub_2.ipynb		IBI_percent_RI1vRI2_facesniff_sub_2.ipynb
IBI_percent_change copy.ipynb		IBI_percent_change copy.ipynb
IBI_percent_change.ipynb		IBI_percent_change.ipynb
M3CA_plots.ipynb		M3CA_plots.ipynb
MIT_poster_plots.ipynb		MIT_poster_plots.ipynb
MOE_Test.ipynb		MOE_Test.ipynb
README.md		README.md
RH6_boris_dics.ipynb		RH6_boris_dics.ipynb
RH6_boris_dics.py		RH6_boris_dics.py
Untitled-2.ipynb		Untitled-2.ipynb
Updated ECG Preprocessing Script.ipynb		Updated ECG Preprocessing Script.ipynb
aim1.ipynb		aim1.ipynb
biopipeline-env.yml		biopipeline-env.yml
cm_iteration1.ipynb		cm_iteration1.ipynb
cohort1_hzchange copy.ipynb		cohort1_hzchange copy.ipynb
cohort1_hzchange.ipynb		cohort1_hzchange.ipynb
cohort_hzchange copy.ipynb		cohort_hzchange copy.ipynb
cohort_hzchange.ipynb		cohort_hzchange.ipynb
plot_social_behavior_RI1_RI2.ipynb		plot_social_behavior_RI1_RI2.ipynb
r34_analysis1.ipynb		r34_analysis1.ipynb
r34_analysis2.ipynb		r34_analysis2.ipynb
r34_analysis3.ipynb		r34_analysis3.ipynb
r34_analysis4.ipynb		r34_analysis4.ipynb
r34_analysis5.ipynb		r34_analysis5.ipynb
r34logistic.ipynb		r34logistic.ipynb
resp_pipline_iteration1.ipynb		resp_pipline_iteration1.ipynb
resp_pipline_iteration2.ipynb		resp_pipline_iteration2.ipynb
resp_pipline_iteration3.ipynb		resp_pipline_iteration3.ipynb
resp_pipline_iteration4.ipynb		resp_pipline_iteration4.ipynb
resp_pipline_iteration5.ipynb		resp_pipline_iteration5.ipynb
setup.py		setup.py
sleap_distant.ipynb		sleap_distant.ipynb
spike_env.yml		spike_env.yml
spikegadgets_EKG_resp_1.ipynb		spikegadgets_EKG_resp_1.ipynb
vid_conversion.ipynb		vid_conversion.ipynb

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