Estrella's Lab Notebook

Jun 29, 2026

Jun 26, 2026

-Note on Catalan 12m samples:

• BISD018 → located and copied to Catalan clinical folder

• BISE010 + BILP021 (Pre-R01 Cases) → Go to video source and clip.

-Note on Catalan Obs2 sample:

• BISE004_Obs2 → Not administered!

The following audios are to be prioritized and clipped:

SPANISH:

• BIOBS003_Obs2

• BILP021_12m

• BISE010_12m

• BISD010_12m

• BILP020_12m

CATALAN:

• BIOBS003_Obs2

• BILP020_Obs2

• BISD019_12m

• BILP021_12m

• BISD018_12m

• BISE010_12m

NOTES:

IMPORTANT!!! Verify clipping with the transcriptions and ensure start and end align with what is reflected on the transcript.

Note: Check for any missing transcriptions while copying over, also add this column to designated sheets.

On the sheet, also indicate with a column if the audio has had to be clipped again. This is to ensure that the audio was checked and aligned with the transcription.

“100- ALL Audios IP Sessions” → In the event that there is any uncertainty about the administration of a timepoint check within this folder. It may be that a clinician did not copy the audio over.

Jun 25, 2026

-Finished an additional paper this morning (Costa) and finished up reading Mueller paper I had started.

-Compiled notes on all the papers I read and summarized everything in a table in both my lab notebook and the Longitudinal PPA Wiki

-Attended Support Group Meeting

-Met with Dr.Grasso

-Met with Ana Pau to orient myself with the assigned task and navigating REDCAP

-Searched for picnic scene samples that SHINY App indicated missing

Jun 24, 2026

-Send Sadie picture + description for post!

Tasks done:

-Reclipped audios

-Read through Hardy paper

-Clipped BISD022

-Clipped SSAD004

-Clipped BISE027

-Clipped BISE015_Pre

-Clipped BISE015_Post

-Wrote blurb + sent headshot to Sadie

@SG I just wanted to confirm my attendance for the support group meeting tomorrow as we had discussed last week. I see that there is a zoom link on the calendar notes, is that how I should join? Thank you!

Question about BISE015:

-In the Pre session MAINCat + Sunday tasks were administered. In Post, MAINDog was administered. Both labeled under Set 2 + 3. Is it normal for same patient to be administered different sets? The primary clinician is listed as Jan Holst.

• Estrella to look at Redcap instrument for connected speech to see if things look congruent. We looked in our meeting and added a note about this.

Jun 23, 2026

-Finished clipping BISD012
-Finished reading + annotating Canu paper
-Started to read Hardy paper on lvPPA
-Finished Clipping BILP030 Part 1 + 2

Jun 22, 2026

-Finish CGSG009 transcription

-Clip audio?

-Continue reading through papers → Add table to the project page

-Finished CGSG007 Transcription

-BISE029 Communication Partner in English

-Clipped BISE014_Obs2

-Clipped BISE014_12m

-1/2 done clipping BISD012

-Working through papers on lab Zotero currently reading through Canu paper

Notes on Patient:

-Adhered to guide learned during therapy

-Could be understood, although there was some delay between words

-Ask Dr.Grasso about working similar hours to last week for a half day next Friday (July 3rd) because parents coming to visit. Work until 6 T and TH!

Jun 19, 2026

-Finish CGSG007 transcription

-Start CGSG009 transcription

-Clip audio

-Finished CGSG009 transcription

-1/2 of CGSG007 transcription finished

-Clipped BISD011 audio

Jun 18, 2026

-Finalize the transfer of PTSG012 Transcription to REDCAP

-Clip BISD021_6m

-

Tasks Done:

-Finished CGSG010 transcription → Took incredibly long! Ended up being 13 pages as the interview was almost 1 hour long!

-Clipped + Ran whisper for CGSG009 and CGSG007 Semi Structured Interview

-CGSG009 Transcription → IN PROGRESS. I am about halfway done. Will finish tomorrow.

-Clipped BISD021_6m → Box and Smartsheet updated

-Searched + found CS administration dates for samples Dr.Grasso sent.

Reminder: I will be WFH tomorrow from 9-1!

Open

Located BISE005. BISE006, BISE010, and BISE011 all in Pre-R01 videos processed through whisper. None of the audio files or tasks had any names on them. I resorted to looking through participant videos to determine the date of administration for tasks.

Open

BISE004: July 15, 2024. No audio file existed within the connected speech folders. Located Obs2 video under R01 participant videos here: https://utexas.box.com/shared/static/9zegfgj9vv033izy1k25i40gxiucn79l.mp4

BISE005 → Picnic Scene 03/15/21 @ 33:40

BISE006 → Picnic Scene 07/05/21 @ 29:25

BISE010 → Picnic Scene 01/26/22 @ 48:00

BISE011 → Picnic Scene 04/06/2022 @54:00

Jun 17, 2026

-Review Katie’s response to questions + Start on a new transcription

-Finish clipping SSAD001

-Run Spanish tasks through Whisper

-Add table to project page

-Finished PTSG010 Transcription

-Finished PTSG012 Transcription

-Finished CGSG008 Transcription

-Katie clarified where to store audio and whisper output within Box. Also mentioned the addition of new protocols:

• Whisper will run for the interview portion only. This means to clip the appropriate session to save time.

• There is now an unintelligible code in the protocol.

-Ran Whisper for pending Spanish samples. Uploaded to Box and Smartsheet updated.

• Clipped ESAD001 →FINAL CLIPPED Audacity file in both Spanish and English folders. All tasks uploaded to Box + Smartsheet updated.

Questions:

Ask Katie about the other person who was speaking in PTSG012 → What is the name replaced with? Unsure if this is the care partner or not.

Jun 16, 2026

-Ask Dr.Grasso about WFH on Tuesdays due to commute time.

Tasks Done:

• Clipped BIML004_Post. Uploaded to Box + Smartsheet updated.

• Began to clip ESAD001_Post → Confirm audacity file location

• Edited “Troubleshooting” tab in Student Lead Wiki

Jun 15, 2026

-Clipped the following audios (all in Spanish):

SSAD004_PRE

BILP038_Pre_Part 1

BILP038_Pre_Part2

BISD026_Pre

BISD022_Post

BILP037_Post

Started to clip: BIML004_Post

ESAD001_Post, can’t find Post Tx audio containing WAB. This is the one that was pending to be clipped here: https://utexas.box.com/s/6vrks10exzuymooct8o4nbclcwxeuon1There is a comment indicating only Picnic and Important Event were administered. Primary clinician Diana.

Attempted to clip BISE027_Span_Pre but there were no WAB samples in the audio. Only English under “participant videos” do I indicate “Not administered” in the Spanish smartsheet? Ana P primary clinician

Jun 11, 2026

-Check for any messages from Whendy/Helena regarding file localization

-Finish last transcript (check if Katie answered questions/comments sent in QUAL Analysis Chat)

-Ask Camille about any outstanding questions regarding the VISTA training.

-Continue reading through RESPALDO.

-Finished all transcript assignments for Qual Analysis. Today I worked on PTSG013. I ran the video through whisper as REDCAP was empty. Pending new assignments and confirmation on a few questions. All links accessible on Smartsheet.

-Continued VISTA training

-Nearly done reading through RESPALDO paper

-Clipped BISE028_Pre → Uploaded to Box + Smartsheet updated.

-Began to clip SSAD004_Pre → Will finish on Monday

-I was going over the clipping reports and noticed that a large chunk of Pre-R01 12m and 6m videos were marked as “Could not be located”. I began to sort through the files and linked the WAB samples in the comments for the ones I was able to find. I will also finalize this by Monday to make future clipping easier.

-On that same note, I had added a “Troubleshooting” tab on the lead wiki page. I will be updating it now that I have gained a bit more proficiency in locating missing samples.

Jun 11, 2026

-Run Whisper for SSLP006, SSLP010, and SSOBS008. Send Whendy Box links when completed.

-Continue next transcription for Katie

-Begin literature review for RESPALDO, Manuscript, and Literature Review

-Ask about adding a section that emphasizes the importance of accurately updating the smartsheet. Also, include a note about sessions that were divided into 2 sessions to ensure none are missed. This would go in the clipping process wiki.

• Ran Whisper for PRIORITY samples: SSLP006, SSLP010, and SSOBS008 But also, for Spanish clinical and Pre-R01.

• Finished transcription for PTSG010. Ran video through Whisper because REDCAP was empty. Linked here: https://utexas.box.com/s/fl890vs53c7k9437x753hnkl7ylzsjfa

• Met with Camille for Reliability training

-Links provided:

• VISTA Summary: https://cloud.wikis.utexas.edu/wiki/spaces/MADRWiki/pages/190054418

• VISTA Reliability R2 (training materiales included in this wiki): https://cloud.wikis.utexas.edu/wiki/x/PQAxQ

• Sign in to MADR LAb toolkit: https://comm-sg-p01.moody.utexas.edu/accounts/login/?next=/

-Watch the POM video training by Jun 12, 2026 !

Meeting notes with CWR:

• Phase 1 or 2? No!!! For monolinguals there are no phases.

• Untrained vs trained… trained means it was worked on during the treatment

• In materials that CWR will send, there are groups of links that will be helpful.

• In regard to POM training video, second timestamp is a bit more complicated but it’s the actual procedure process. Pay extra attention!

-Message sent to Whendy regarding Whisper:

• Hello Whendy N Avila Motta, 

  Here are the links to the Whisper outputs
  SSLP006: https://utexas.box.com/s/t8bxzftwbz6nd3pzw98vyoi19cmjg4gm
  SSLP010: https://utexas.box.com/s/0jnkpl1038jtabnlz6ccqydr4ed3z2qi
  SSOBS008: https://utexas.box.com/s/85jhewrw5c80nfmk2d4n4105ls1pucbc

-Message sent to Katie with questions/comments about Transcription procedure:

• Hello Cole, Katie! 

   

  Here is a summary of the questions/comments I have:

   

  • When running the video through Whisper are we to run the entire audio or clip to the appropriate spot and then run through Whisper? For PTSG010, I clipped based on the timestamps that were provided in the comments and then ran through Whisper. I allocated the clipped version of the audio here: https://utexas.box.com/s/bbs35l0hirryohpjgo4fzf6gprsuy1r4 . I did this to decrease the time it took for the video to be processed since the interview itself was only ~7 minutes. I have put the whisper output within the same folder as the audio here: https://utexas.box.com/s/vdoa6nf51t18audp0hxkjcqsf3w962o6

  • I may just be overlooking it, but I don't see a whisper column in the SSG_Transcriptions smartsheet that are indicated on the Wiki page 1. Who Processed Via Whisper? 2. Video/Audio Processed Through Whisper”

  • I noticed while uploading the clipped audio and whisper output that Ana had already uploaded a whisper output. However, the REDCAP was empty. Was there somewhere she indicated running whisper that I missed?

  • One last thing, I agree with Jimena that we'd benefit from having an <unintelligible> code 

     

Jun 10, 2026

-Run Whisper for pending samples

-Continue transcription of CGSG010

-Clip an audio

-Meet with Dr.Grasso @ 11:15

@Estrella Palomo Read the following manuscript to come prepared in next meeting to describe the participant: Classification of primary progressive aphasia and its variants BISE028 by Jun 18, 2026

-Install Rstudio server on the dell computer

-Establish strong foundation for rationale for the project

• Literature review for Introduction

• connected speech, spontaneous speech, picture description, primary progressive aphasia, semantic dementia,

• +/- longitudinal, trajector*, progress*, pattern, decline

• Hours for next week

  • M,Thu, 8-6 (half hour lunch)

  • W: 8-5

  • Tuesday 2-5:30

  • Friday: 9-1 WFH

• WIN Presentation

• Completed transcription of CGSG010

• BILP007 Picnic Scene PRE-treatment in Catalan → seems to not have been administered. I looked through the videos here: https://utexas.box.com/s/b9rx5ieonqi7q8hssuis54174a5k4mzj and did not find the picnic scene in Catalan. If I could get a clinician to verify just to be extra sure I’d appreciate it before sending out a confirmation message to Helena!

• Confirm where experimental room is → 2nd door to left of big office space

• Completed BISE028 VISTA session as communication partner:

-Note: If clinician does not provide the zoom link (e.g. Today), look through the Cronograma spreadsheet: https://utexas.box.com/s/rfzgatxpiew92zf7vqat1mtf09bqdhkr and find the zoom link under “TX”.

-Session went well, made the conversation sound as natural as possible for the patient.

-Have not received any feedback from clinician (Maria Pinart) → reach out to ask her ways to improve?

• Assisted Dr.Bao in blindly testing the Cinderella task

-As of right now, the task is composed of 4 sections and takes a total of 5 minutes.

Section 1: Tell the story of cindrella in as much detail as possible. 1 minute to do so.

Section 2: Describe 2 images in as much detail as possible.

Section 3: (Without being shown the previous 2 images) recall the details in the 2 images

Section 4: Two questions

-What were the animal names written on image?

-Which of the following pictures appeared in one of the 2 images?

• Feedback provided to Dr.Bao:

-Timing for first task felt rushed (he said the priority is detail not necessarily completion)

-Sufficient time for sections 2 + 3

Notes on sanity checking:

• Go to redcap → search patient (e.g. BILP029) CLICK UNIQUE D nd go to connected speech instrument check preimera and seguimiento

• pRE R01 patients → MADR participant information smartsheet should suffice for checking sanity

For the literature reading:

• Utilize Zotero to upload into the MADR Lab ”Longitudinal PPA” project.

• Read through introductions of the paper to get a better sense of what they are about

• Using Gemini (provided with UT), indicate a prompt to create a tabular format of all the literature with information about the participants in the studies, etc. This will serve as a base to create a centralized spot for the literature. Once summarized, tweak to match

• Message sent to Whendy regarding file localization:
   

  I have a few updates for some of the files I had previously marked as "Not administered". I went back to verify that the "Completed" audios with Picnic marked as "Not administered" by our clipping team was accurate. After going through each individual audio it seems the task had originally been missed (or not indicated on the smartsheet) when being clipped. Here is a summary of my findings: 

   

  • SSLP006_Pre: Marked as completed with Picnic "Not administered" I was able to find the task and clipped it here:  Here is the clipped version here: https://utexas.box.com/s/bqvmoepcfbu21mv4yj5z50ksba97wdr1

   

  • SSLP010_Pre: Has been found and clipped. Please note: there are two parts to this audio. A student marked the audio as "Completed" but accidentally missed the second part. I will be returning to this audio ASAP as I only clipped picnic scene to get this sent out to you. I will indicate this comment on Smartsheet. Here is the clipped version: https://utexas.box.com/s/kl7k3c89oet5ec808h41xbbyvasz18ys

  • SSOBS008_EB1: Had also been marked as "completed" but no picnic scene. I was able to find it. Here is the clipped version: https://utexas.box.com/s/jt8xbgf893sutpfkkgq1ij5lfp57ilbw

   

  Below you will find the ORIGINAL audio sources for your reference:

   

  -SSLP006: https://utexas.box.com/s/bc1kr8cxb2pmoppmmmtexoun9qgj7ku0

  -SSLP010: https://utexas.box.com/s/5m6tmp72o3esvfmnu1kup90d3vaic90e

  -SSOBS008: https://utexas.box.com/s/3dw7ywo3ra7vcyscusdbduz41mlrr2rb

   

  There were no nodes available to run the above samples through Whisper. I will prioritize this tomorrow.

   

  NOTE: I noticed on the your smartsheet that BILP013 was marked as "No audio clip". It likely got lost in the thread but this was clipped and ran through whisper last month. I have pasted the links below:

   

  Picnic Scene Clipped: https://utexas.box.com/s/fd63qvg9awovn3tgwy1lisupwfbw6x2y

  Picnic Scene Whisper: https://utexas.box.com/s/jzckae58q9v2u7jhuoatf0zz717aic1l

   

Jun 9, 2026

-Read through Communication Partner VISTA page

-Clarify 16:45 BcN time is 10:45 am here.

-Continue working through CGSG010 transcription → ask Katie for times to meet?

• Ask how to indicate a stutter? Time stamp 46:00 for CGSG010_PostPhase2

• Nearly done transcribing CGSG010

• Reclipped audio

• Reviewed VISTA page

• 16:45 BCN is 9:45 am in ATX! Camille booked experimental room from 9:30-10:00!

Jun 8, 2026

Questions:

-What does it mean to be a “communication partner” I signed up for two sessions (June 10th, Castellano and June 22nd, English).

• Review this page: https://cloud.wikis.utexas.edu/wiki/spaces/MADRWiki/pages/190457286

-How do I receive access to RedCap to assist with transcribing?

• Support Group Redcap: https://redcap.dellmed.utexas.edu/redcap_v17.1.2/index.php?pid=3772&__record_cache_complete=1

-Clarify hours for working past 5pm when needed.

• Clarified hours at top of lab notebook and discussed on Jun 8, 2026

Re-Review Student Team Lead Tasks:

• https://cloud.wikis.utexas.edu/wiki/spaces/MADRWiki/pages/358353445

-Meet with Dr.Grasso to discuss:

SSLP008_Pre Picnic Scene — Needed clipping (confirm it has been clipped by Arely and link you provided seems to have expired so you'll need to hunt for this one)
The full session was located, but it's over an hour long and still needs to be clipped down to the Picnic Scene. Can you walk me through what went wrong with your clipping process for this one?
🔗 https://utexas.box.com/s/5mhkrcgiikka4nl1si37ufq1g5pgawt3

3. BIML001_Post Picnic — Was missing source audio (confirm it has been found)

This was run through Whisper, but I can't locate the audio file it was run on. Can you let me know where you pulled the original audio from? It's not in either of these folders:
🔗 https://utexas.box.com/s/tsqptnzwvldlyavdbn31g7izyscoziy0
🔗 https://utexas.box.com/s/9iavpeq8odf8lepi9pu2us54eb2tj8d5

4. SSLP004_Pre Picnic — Reclip pending since 5/17

Needed to be reclipped (check Arely did it). Please come prepared with a plan for how you will monitor this as the clipping lead!
🔗 https://utexas.box.com/s/osca9scp34x7zb2ewtve8m6hurxt1twd

5. SSOBS012_EB1 — Reclip pending since 5/17

You'd started on this one, but the sample looked unchanged on my end — I think the edits may not have saved. Please see what went wrong but Arely I believe re-clipped
🔗 https://utexas.box.com/s/z8w4j9ls626kqbmns70pfh8fp89wp7hi

Tasks done today:

-Answered Whendy’s messages on the Transcription channel.

-Made notes on the sample cases Dr.Grasso outlined in message.

-Reviewed “Transcription Manual” → Am I to transcribe the audio from scratch or is there something on RedCap I need access to?

-Verified whisper smartsheet was up to date with output from May 28 and Today.

-Clipped BILP035_6m

-Clipped BISD023_6m

-Clipped BISD019_12m

All changes reflected on Box and Smartsheet.

-SSLP008 → Accidentally uploaded full version instead of clipped version. Error on my end. Updated Whendy on this today!

-BIML001 → Found here: https://utexas.box.com/s/x05gnszws15u9yrfekv5jbb1lct50wub

Originally clipped it as is, noticed whisper output had clinician speech. Reclipped today. Updated Whendy on this today!

SSLP004 →Jada clipped this sample and I ran it through Whisper and the output could be found here: https://utexas.box.com/s/jmumqkbkmtxa8men61prby5pnthatrjl . I must have missed the reclip request as it was sent 5 pm 05/27, my last day before returning for WIN was 05/28 where I prioritized uploading whisper output, updating smartsheet, and clipping samples that I had been unable to locate until that day. I also reclipped a sample that day for Whendy, I overlooked the request for this though.

SSOBS012 → I reclipped the sample as Whendy asked and it can be found here: https://utexas.box.com/s/y45v8f951cn3qyquk4jyq5n678amwj1d . I uploaded this on May 28. It ends at the timepoint she indicated to me.

May 28, 2026