Estrella's Lab Notebook

May 4, 2026

-Sanity check on files in CS Spanish Transcription Status for Whendy. Check if audios are clipped and ran through Whisper.

-BIOBS012 → Clipped + Whisper Output

-BILP035 → Clipped + Whisper Output

-BIOBS011 → Clipped + Whisper Output

-BIOBS009 → Clipped + Whisper Output

-SSOBS012 → Clipped + Whisper Output

-BILP013 → Clipped + Whisper Output

-SSSE009 → Picnic + Important Event not administered. Cat Rescue located.

-SSLP010 → Picnic not administered. Important Event and Cat located.

-BILP010_Obs2 → Smartsheet indicates tasks were clipped but cannot be located ***

-BILP020_Obs2 → Tasks not administered

-SSOBS008--> No picnic or Cat administered. Clipped but could not locate files.

-BILP029--> Files located. No cat.

-SSLP008 → No picnic or important event. Cat rescue whisper located.

-SSLP006 → Only important event. Picnic not ran through Whisper yet.

-SSLP004--> Tasks not administered.

-BIML001 → No picnic. Cat Rescue + Important Event whisper output located.

-BIML002 → Smartsheet row blank.

-Assws indo doe rh tracking of pprojectic specific

look at folder structure and make sure we are satisfied with it

there was no addiitional guidance to the transcribers

-Update the section that includes the instructions for thre transcibers to reflect what was actually done/ some stuff is there but some stuff is not exactyly relevant

On the wiki also be sure to enumerate when the column that indicates transcription status gets updated

in this filer there is a folder that does x

had to indicate who was to retranscribe and perofmr consensus. based off their values some got assigned consneus other

Apr 16, 2026

-Continue Clipping

-Finished clipping BISD024_Pre and began to clip BILP036_Pre

Apr 15, 2026

-Sanity check on the timepoint days apart on the Shiny app

-Confluence export PDFS of the entire connected speech SOP in the case Dr.Grasso asks

Sanity Check on Parent Folder:

-Catalan BILP020 and BISD011 Pre copied from project specific folder to parent.

-Spanish BISE013 12m and BISE011 Obs1 copied from project specific folder to parent.

From Shiny App:

• BILP014_Pre Span → Pre to 1 year follow up was <100 days. Changed year for 12m to 2023

• BILP014_Pre Cat → Pre to 1 year follow up = 101 days. Changed year for 12m to 2023.

• BISD013_Pre Cat to Post was > 200 days. Didn’t see anything inherently wrong with the dates. Left as is. Seems pre and mid were also scheduled far apart.

• BILP025_Pre Span to Post was >400 days. Changed for 12m to 2024 from 2025.

• BIML002_Pre Span to Post was > 400 days.. Changed year from pre from 2021 to 2022.

• BISD013_Pre Cat to 6mo was > 400 days. Didn’t see anything inherently wrong with the dates. Left as is.

• BILP008_Pre Span to 6mo was > 600 days. Changed 6m year to 2021 from 2022.

From Meeting with Dr.Grasso:

Download the R desktop app to laptop app

Install certain toolboxes

double click shiny app

click run app

counts for sonia’s project

Ranges 200-300 for 6m

Ranges pre to 12m are going to be around the 300 range

Ranges for pre to post are around the 50-70s

-Verify the dates

How would I verify the dates are correct for the time point visits?

BILP014 Catalan example where the pre to post was over 400 days! Go to smartsheet > connected speech data analysis Catalan parent sheet.

Madr information participant sheet

CONNECTED SPEECH R dashboard

Apr 13, 2026

-Clip and run Whisper

-Finished clipping audio for BISE019_12m in Catalan.

-Finished clipping the 3 parts for BILP027_12m in Catalan.

-All changes are reflected on the smartsheet and Box.

-I was not able to get access to TACC but will continue trying throughout the week.

Apr 10, 2026

-Finished clipping: BILP028_6m and I am nearly done with BISE019_12m

Apr 9, 2026

-Continue clipping samples

-Run Whisper if there are nodes available

-Finished clipping BISD019_6m

-RAN WHISPER

Open

Open

Open

Apr 8, 2026

-Run Whisper for the Picnic Samples

-Sanity check on transcriptions

-Continue clipping priority samples

• Finished clipping BILP034_6m in Catalan.

• Finished clipping BISE022_6m in Catalan.

• Checked status of transcriptions in original folder. There are still a few missing:

-Catalan: BISD011 Pre, BILP020 Obs1

-Spanish: BISE013 12m, BISE011 Obs1,

• As for whisper, I waited for a node my entire shift and was not able to get in. I have passed off the laptop to Aaliyah.

Apr 6, 2026

-Continue clipping samples

-Run Whisper

• Clipped BISE026_Pre in Spanish and BILP036_Pre in Catalan

Apr 3, 2026

-Finished clipping samples on Audacity for BISE015 and BILP028

BILP028. part 2 → microphone tap at 5:57 ish also there is continuous buzzing throughout all the samples for this patient

Part 2 teams notification at 10:10

Apr 2, 2026

Apr 1, 2026

-Meeting with Dr.Grasso

-Run Whisper for Picnic Scene Samples. Then for other tasks.

-Continue clipping audios I had started if time permits.

Apr 3, 2026

-Finished clipping samples on Audacity for BISE015 and BILP028

BILP028. part 2 → microphone tap at 5:57 ish also there is continuous buzzing throughout all the samples for this patient

Part 2 teams notification at 10:10

Mar 30, 2026

-Run Whisper

-Continue Clipping

-I attempted to run Whisper today for different samples but there weren’t any nodes available. I began to clip samples on Audacity instead but also had trouble with the headphones not connecting.

Mar 27, 2026

-Clip samples and run whisper for recently clipped tasks.

-Finished clipping for BISE022_6m

-Finished clipping for BILP034_6m, pending clarification for MAINCat task. I’ll upload the tasks on box once clarified. For now I have saved the Audacity project under my notebook.

-Finished clipping BISD019_6m

-I was not able to get a node for Whisper so I will work on those next week as they’ve begun to accumulate.

Mar 26, 2026

-Update reliability spreadsheet with consensus

-Continue editing Whisper Catalan Smartsheet

-Finished clipping BILP036_Pre

-Started to clip BIE015_Pre

-Finished updating the CS reliability sheet for Catalan and Spanish. Most congruent transcriber pair also updated on the sheet.

-Finished editing the Catalan Smartsheet:

• BISE012 →Psychiatric case manifested as a neurodegenerative disorder. Patient not seen anymore. DELETE EVERYWHERE.

  BISE011 POST → Fixed. Note imp event clip could not be located according to smartsheet comment.

  BISE010 POST → Fixed with Dr.Grasso

• BISE010 3M → Picnic scene has not been clipped.

• BISE010 6M → Picnic scene has not been clipped.

  BISE007 12M → Fixed. Note imp event clip could not be located according to smartsheet comment.

  BILP012 PRE → Fixed.

  BIML001 12M → Fixed. Important event not administered.

  BILP019 3M → Fixed. Note imp event clip could not be located according to smartsheet comment.

  BILP018 PRE → Fixed. Note imp event clip could not be located according to smartsheet comment.

• BILP018 12M → Fixed. Note imp event clip could not be located according to smartsheet comment.

  BILP017 12M → Fixed. Note imp event clip could not be located according to smartsheet comment.

  BILP015 3M → Fixed. Note imp event clip could not be located according to smartsheet comment.

• BILP015 12M → Fixed. Note imp event clip could not be located according to smartsheet comment.

  BILP014 12M → Fixed. Note imp event clip could not be located according to smartsheet comment.

• BILP014 3M → Fixed. Note imp event clip could not be located according to smartsheet comment.

  BILP013 12M -> Fixed. Note imp event clip could not be located according to smartsheet comment.

  BILP007 PRE → Fixed. Picnic scene not administered.

Mar 25, 2026

-Update the reliability spreadsheet with new rely values

-Check that transcribers have followed instructions of replacing the pre-consensus transcript with the post-consensus

-Go into Catalan Whisper Smartsheet and ensure that all Pre-R01 tasks have been marked as “completed” (if applicable)

• Transcribers have began to populate the Box folder with the updated transcriptions (post-consensus) in the original folder. They have been updating the folders within Longitudinal PPA Project with the updated transcriptions and replacing the (pre-consensus) transcriptions.

Note that Pre-R01 Tasks consist of:

Cat Rescue, Picnic, and Important Event

Mar 23, 2026

-Confirm participant timepoints that could not be found on the smartsheet

-Run RELY for latest re-transcription sample

-I ran RELY for BILP017

Pair 2 +3 (JC + HM) → include consensus met in smartsheet

% Utterances: 100

% Words: 93.0

Pair 1+3 (NMC + HM)

% Utterances: 73.3

% Words: 91.0

-Finished clipping BILP035_Post and BISD024_Pre

Minor tweaks to Connected Speech Documentation:

After the consensus meeting:

• Update the original transcript that is located in its original folder (e.g., B--Connected Speech_Data) based on the agreed changes.

• Delete any old or unreliable transcript versions from the original folder so only the final version remains.

• The updated transcript is now the final, reliable version and can be used for analysis. 

• Record all reliability calculations and decisions in the Connected Speech Reliability Smartsheet.

• Update Transcriber 1 and Transcriber 2 in the Smartsheet with the final reliability values (the most matching pair).

• Previous reliability results will be documented in the project specific consensus folder within the transcriber spreadsheet.

Mar 13, 2026

-Finish Running PRE-RO1 Catalan samples that crashed + update the smart sheet.

Noticed some participants could not be found on the smart sheet .

To find these go to the Catalan parent sheet and check if all assigned tasks have been marked as “completed” as they may not be updated. If not, take note of the patient timepoints that are actually missing.

BISE012 → DELETE EVERYWHERE

BISE011 POST

BISE010 POST, 3M, 6M.

BISE007 12M

BILP012 PRE

BIML001 12M

BILP019 3M

BILP018 PRE, 12M

BILP017 12M

BILP015 3M, 12M

BILP014 12M, 3M

BILP013 12M

BILP007 PRE

Mar 11, 2026

-Prioritize clipping for Catalan to begin getting the samples ready for the transcribers!

-It looks like most consensus meetings were done yesterday and Saturday!

-Helena + Jaume and Helena + Whendy are nearly done with consensus. Pending 7 more!

-Run RELY for updated transcriptions on samples

-It looks like most consensus meetings were done yesterday and Saturday!

-Helena + Jaume and Helena + Whendy are nearly done with consensus. Pending 7 more!

-Prioritize clipping Pre, 12m, 6m, NOT Post or Mid! → Filter Clipping Smartsheet to show only those AND any that are not completed!!

Mar 6, 2026

-Finish running audio for SSSE10

-Check for any updates on transcriber spreadsheet

-Run Cat Rescue Catalan samples through Whisper

-No new updates on the transcriber’s spreadsheet.

-Finished Clipping SSSE010_Post

-Continued to clip BILP035_Post

-I wasn’t able to run Whisper because I couldn’t get a TACC token, but I’ll be sure to do so on Monday so I can finish the Catalan samples.

Mar 5, 2026

-Run RELY with transcriber 3 samples

Ran RELY for BILP010_Pre

AEQ (Transcriber 1) + HM (Transcriber 3)

% utterances: 82.4

% words: 75.2

WAM (Transcriber 2) + HM (Transcriber 3)

% utterances: 87.5

% words: 74.2

Ran RELY for BISE013_12m

MVR (Transcriber 1) + HM (Transcriber 3)

% utterances: 72.7

% words: 74.5

WAM (Transcriber 2) + HM (Transcriber 3)

% utterances: 100

% words: 89.8

Mar 4, 2026

-Continue to run Whisper

-Check updates from consensus

-Continue to clip audios

-Finished running all samples for the Cat Rescue Spanish samples!

-Pending clarification for BISE011 audio labeling

Mar 2, 2026

-Run Whisper for samples

-Finished running Whisper for the following Spanish samples

Pre, 3m, 6m, 12m, Post for all except BILP014

BILP006

BILP007

BILP008

BILP009

BILP010

BILP011

BILP012

BILP013

BILP014 (12m only)

I had issues with the Whisper laptop. It was running very slow and kept closing tabs. At some point Whisper stopped generating the transcripts but I was able to finish the samples. All changes are reflected on Box and Smartsheet. I also spoke with Arely about a few questions I had regarding clipping and using Audacity. Thanks!

Feb 27, 2026

-Finish running Whisper for samples I have clipped

-Begin running Whisper for samples Aaliyah assigned.

WFH Today

Catalan Bridge OBS Samples (All completed):

BISE010:Obs1 (Audios 1-9) and Obs2 (1 audio)

BISE011: Obs1 (Audios 1-11)

BILP013: Obs1 (Audios 1-9) and Obs2 (1 audio)

BILP010: Obs1 (Audios 1-8)

BISE006: Obs1 (Audios 1-9) and Obs2 (Audios 1-9)

Spanish (recently clipped) all audio samples ran through Whisper for:

SSLP009

BILP030

BILP033

BISD023

BIML004

I will continue to run the pending samples Aaliyah assigned me next week.

Feb 26, 2026

-Finish Clipping BISD023_Post

-Run through Whisper completed Span. Samples

-Finished clipping BISD023. All changes are reflected on the Smartsheet and Box!

I also began writing Whisper for S1+S3 Spanish Tasks.

Picnic:

BILP030_6m

BILP033_6m

SSLP009_6m

BISD023_Post

Important Event:

BILP030_6m

BILP033_6m

SSLP009_6m

BISD023_Post

BIML004_Pre

Teeth:

SSLP009_6m

BISD023_Post

BIML004_Pre

BILP030_6m

BILP033_6m

MAIN DOG:

BIML004_Pre

BILP030_6m

BILP033_6m

SSLP009_6m

Frog Where:

BIML004_Pre

BILP030_6m

BILP033_6m

SSLP009_6m

Feb 25, 2026

-Finish clipping BILP033_6m

-Continue to clip WAB samples that contain the picnic scene

From meeting with Dr.Grasso:

-Refer to the parent Smartsheet to see which participants have not had the Picnic Scene WAB sample clipped! Those are of highest priority for the project!

-Finished clipping BILP033

-Halfway done clipping BISD023

Feb 23, 2026

-Begin clipping WAB samples that have the picnic scene

-Meet with Arely to discuss clipping training/feedback

• I clipped BILP030_6m. All changes reflected on Smartsheet and box!

• Halfway done clipping BILP033_6m

• Note: The Audacity project file can be found in Box lab notebook in order to continue on different desktop. Left off at 22 m and 32 s. No interruptions yet.

• Received feedback from Arely regarding my clipping training. Green light to clip samples.

Feb 20, 2026

-Begin to clip new audio samples

-Clipped BIML004. All tasks except Bridge and Picnic were administered. All outputs were put into their corresponding folders in Box.

-Completed clipping SSSE010_Post. Need to export the file and add everything to its designated folders.

Feb 19, 2026

-Edit Audacity project and upload to Lab Notebook on Box

-Finished clipping project and made changes to the clipping. Such as removing accidental loops I made, etc. All files, including the Audacity project, have been uploaded to my lab notebook on Box under “Clipping Practice” folder.

-Questions:

• How to determine which WAB samples are missing from the longitudinal project?

• Were the samples underneath green row on CS Reliability sheets ever confirmed with Sonia?

Feb 18, 2026

-Meet with Dr.Grasso + Jada to discuss next steps for project

Clipping:

Meeting notes:

Make the following changes to Smartsheet conditional formatting

below 99.5

highlights if below .0795 to account for running

Feb 16, 2026

-Add automation workflow to the smartsheet

-Finish clipping practice

WFH

Added conditional formatting to columns on the smartsheet. Also made sure the %s rounded to whole numbers.

Completed the clipping practice.

Made sure the initials of all transcribers were present in the file names for both Catalan and Spanish in the Longitudinal PPA project.

Feb 12, 2026

-Finish running reliability for Catalan samples