Page Comparison

MAIN TASK: Copying clipping data status from ARCHIVE 0.Connected_Speech_Clipping to Connected Speech Data analysis

10 Jun 2024

Data Analysis Smartsheets- adding file type recording and saved as options

•  Kyleigh McAlister Add columns of Recorded In and Saved As, as shown in WAB example but add columns for ALL other tasks
•  Kyleigh will do this for all three languages

Ensure dropdown options are allowed

Allow for multiple select from dropdown for each column

• WAIT for next step when Sonia gives green light-

•  Kyleigh McAlister has organized list of samples with file types in lab folder
•  Kyleigh McAlister and will add that data to the Data Analysis Smartsheet 12 Jul 2024
•  all data of saved as has been completed in all the data analysis smartsheets
•  Kyleigh McAlister next task filling out file type for all pre-r01 samples in all the smartsheets 25 Jul 2024 How it was recorded Columns

Diana already included data on how it was saved for all pre-R01 Samples. For pre-r01 samples all samples were recorded through Zoom

•  Kyleigh McAlister deleting double option format in columns of saved as

Changed drop down of “saved as” options in the Connected Speech Clipping sheet

• Decided we would allow for multiple options for the samples saved in audio and video and clipped in both formats

Double-check status of moving of clipping sheet for R01 samples to the Data Analyses Smartsheet -

•  1. Sonia Marqués copy R01 Spanish clipping data --- Sonia Marqués will to enter it manually: https://app.smartsheet.com/sheets/9vvpj7qQ3Qr9mG3r42Rw3w7qxHjVhfHGHMRg7C81
•  2. Kyleigh McAlister change name of columns to 0.Clipped 02 Aug 2024
•  Sonia Marqués creates example of clipping report - Spanish set 1+3
•  Shayla Fernandez Amaya and Sonia Marqués meeting and then she can create other reports
•  3. Sonia Marqués copy pre-r01 and R01 catalan clipping data
•  4. Sonia Marqués copy pre-r01 and R01 english clipping
•  rename reports as archived and folder

In this Spanish Smartsheet: https://app.smartsheet.com/workspaces/vGQcrxvPX9fF449983RW8CC9WrcvQMV82Rhv9gw1

Copy and paste each row of data from the yellow ID to the row of the same timepoint of the participant but without the yellow highlighting

•  Ana Elisa Quinonez Camacho will copy and paste for Spanish
•  Sonia Marqués will start the process for Catalan – Ana Elisa will copy and paste-same process
•  SMK English - – Ana Elisa will copy and paste-same process

Mid-tx video clipping

• All recordings are in Zoom, when possible as .m4a, recorded as and saved as. The same process in audacity can be used.

•  Sonia Marqués reminder to clinicians to export and upload m4a file to CS data raw folder - indicating where - send reminder, update sop
•  Redcap midtx add variable for clinician speech, and update sops

Transcription- Updating file structure

Copying files from here: Bilingual_PPA_Samples_UTBattery to here: using the reports to check status:

1. B--Connected Speech_Data-Clinical Trial- Spanish

4.PicnicScene_coded_chat

4. ImportantEvent_coded_chat

4.CatRescue_coded_chat

1. B--Connected Speech_Data-Clinical Trial- Catalan

4.PicnicScene_coded_chat

4.mportantEvent_coded_chat

4.CatRescue_coded_chat

1. B--Connected Speech_Data-Clinical Trial- English

2. 4.PicnicScene_coded_chat

   4.mportantEvent_coded_chat

   4.CatRescue_coded_chat

•  Sonia creates checklist for ensuring transfer from older structure (Pre-R01 transcriptions) to new folder structure:
•   Sonia Marqués add column, checked for repetitions and revisions - add 3 columns- nov 16, 2023
•  Spanish: https://app.smartsheet.com/reports/VxQpwHJxmcRpCrRx7WgwhpmFW9MC6qP8vHjMjr51
•  Catalan: https://app.smartsheet.com/reports/H8xp4GfFf8r535qrmMVWcr8WpWjg5m4qQx7W2g91
•  English: https://app.smartsheet.com/reports/QqGP4gCQ8C3wCMC9jQfq5qphhrp29Jx9rj4HQgj1

•  Diana Cruz copy files checking the edit date in box, before november 2023 all transcriptions were not checked for revisions and repetitions

Simultaneously update status data of WHAT has actually been transcribed

Missing will be status if it says it was transcribed but cannot be located

2.Planning MINT

English smartsheet different columns, why?? - https://app.smartsheet.com/sheets/3w8g9fjmv3mV5RwwcpR7rGWMhxgPr8W5qr437F71

•  Kyleigh McAlister Check that English Smartsheet is the same as Spanish Smartsheet. There are some missing columns in the Data analysis Smartsheets

• towards the end of sheet there are columns in Spanish and Catalan and need to be deleted and some columns need to be added to the English sheet

•  SKM adds columns to the smartsheets and creates MINT report, https://app.smartsheet.com/reports/3Hg9hM3vq6QQcc7hQ7Cxv7rr79r5c8F6cx793j61 
•  Diana Cruz to move MINT samples here: https://utexas.box.com/s/00jk6h0p5tw1900bcyuanr1sziqmsywe MINT samples are saved here: https://utexas.box.com/s/6dh0k3zje1xencqh5nh1mbdj8l8rttpx

MINT drop down (check if it's okay, added to the 3 smartsheets, Spanish, Catalan, English) 

• Clipped

• Administered but not clipped

• Not administered

• Missing

• No need to add format of file type for MINT

1.English Audios Pre-R01

•   Diana Cruz to provide Update: process of moving-copying pre-r01 to R01 structure process. ENGLISH:https://app.smartsheet.com/reports/V66VqhpQRRhjFx7997H73W7JJ5w5FP59GmJh53c1

25 Jun 2024 KPM- Need to check if Clipping guide was updated correctly

20 Jun 2024

non-r01, eval basica

where to save: 1 separate MAIN folder with everyone that is not R01.

•  Sonia Marqués create MAIN folder
•  Kyleigh McAlister update clipping guide: https://cloud.wikis.utexas.edu/wiki/x/eYJZAw
•  let clinicians know that they have to save it there in lab meeting-- naming convention- SMK give overview to Camille Diana

VISTA Clipping

• BISE013’s files: .wav files were not yet being collected consistently for VISTA clipping, so we need to use all video for this patient
• BISE005 files have only partial data and partial observations at post so Ana Elisa will include what we have and create a readme

•  BISE014: Sonia Marqués needs to see if pre-treatment wav files were collected in Spanish and Catalan and export and if we don’t have we will make decision after
•  SMK found them and will export them and upload them in wav files and will let Ana Elisa know

Video Clipping Guide

•  Kyleigh McAlister Create a clipping guide for videos using QuickTime Player

Reclipping-

Ana Elisa found some audios that needed to be reclipped from Kayle, Kyleigh and Shayla have helped clipping them

VISTA suggestion

•  Ana Elisa Quinonez Camacho add column with drop down that informs if data should be used from the MB data POM sheet excels or whisper 12 Jul 2024
•  add in VISTA POM guide step of checking ortography

VISTA

•  Shayla Fernandez Amaya clipping VISTA Samples, prioritize Catalan samples so Núria can check them
•  Shayla Fernandez Amaya Ana Elisa Quinonez Camacho running samples through whisper- coordinate – all catalan have been run through whisper
•  Ana Elisa Quinonez Camacho progress with transcription of VISTA samples
•   – all bise016, bise018 have been transcribed pre and post – no 6m FU yet

•  Shayla starts clipping moving backwards from BISE018 and Ana Elisa transcribing - 1st Spanish and Catalan bilinguals
•  BISE015 questions, neurogenic stuttering - transcription – clipping: https://www.stutteringhelp.org/neurogenic-stuttering
•  training Alyne with Clipping
•  Ana Elisa Quinonez Camacho adds folder whisper-MB transcript
•  Ana Elisa Quinonez Camacho update file hierarchy guide with new updates
•  Ana Elisa Quinonez Camacho move mor library CLAN on Box so it’s updated.

29 Jul 2024

CS instrument change

•  add midtx timepoint to CS instrument?
•  change made in CS1 Span make to all CS instruments

Kyleigh last day

•   Check lab notebook, include anything in wiki, delete archived files
•  training Shayla complete!

03 Oct 2024

• Decisión 20241003- Siempre hacer clipping según las indicaciones de Dr.Grasso, si no por default siempre hacer primero las de la fecha más antigua.  

• Shayla downloads box drive or box sync for next meeting

• Ask Ana Elisa to adding SMK and Shayla to channel 

• access to Dr.Henry's smartsheet - use it to edit when necessary, but it's more recommended to use your own account for general tasks

• add column for date for the samples in 0.VISTA_Probes 

  • asignar a Hallel y Jada de añadir las fechas (cuando acaben de hacer clipping de las muestras que les faltan)

• Clipping progress

  • VISTA - ready all timepoints?

    • some of them we used the zoom, no audio, -- this is documented in lab notebook -- SMK: recommend having this information in the 0.VISTA_Probes smartsheet 

      • TASK: adding a column in 0.VISTA to indicate if sample is missing in audio -- "Audio uploaded and copied to box" "yes, no, missing, yes but audio unuseable" 1. Missing audio and another column of "note in regards to missing sample"

  • CS - ready all timepoints?

  • TASK: reviewing if they are OBS or Clinical Trial looking at 

    • Option A. Redcap, anamnesis --- future task: create report of CS

    • Option B. Madr participant information

  • Task for SMK- monthly check that the audios are correctly saved

  • Midtx audios clarified

• Diana’s update

• Started on English pre R01, but not yet complete (there is a lot of missing videos).

• Decisión 20241003- Siempre hacer clipping según las indicaciones de Dr.Grasso, si no por default siempre hacer primero las de la fecha más antigua.  

• Shayla downloads box drive or box sync for next meeting

• Ask Ana Elisa to adding SMK and Shayla to channel 

• access to Dr.Henry's smartsheet - use it to edit when necessary, but it's more recommended to use your own account for general tasks

• add column for date for the samples in 0.VISTA_Probes 

  • asignar a Hallel y Jada de añadir las fechas (cuando acaben de hacer clipping de las muestras que les faltan)

• Clipping progress

  • VISTA - ready all timepoints?

    • some of them we used the zoom, no audio, -- this is documented in lab notebook -- SMK: recommend having this information in the 0.VISTA_Probes smartsheet 

      • TASK: adding a column in 0.VISTA to indicate if sample is missing in audio -- "Audio uploaded and copied to box" "yes, no, missing, yes but audio unuseable" 1. Missing audio and another column of "note in regards to missing sample"

  • CS - ready all timepoints?

  • TASK: reviewing if they are OBS or Clinical Trial looking at 

    • Option A. Redcap, anamnesis --- future task: create report of CS

    • Option B. Madr participant information

  • Task for SMK- monthly check that the audios are correctly saved

  • Midtx audios clarified

SPANISH Ana Elisa+Whendy updates:

• Dr Santos transcriptions

  • transcriptions - all done

  • reliability ratings in July - Ana Elisa lab notebook

    • double rate 10%, ratings were quite high, all above 80%

      •  Ana Elisa Quinonez Camacho Whendy Avila Motta rely Dr.Santos samples, 10% samples - 6 samples, 3 each, assign randomly separately 11 Nov 2024
      •  check notebooks, functional to transfer action items

• Kesha paper - Connected Speech WAB picnic scene lvPPA and nfvPPA pre and post - ALL transcribed (pre and post)

  • SMK asks to transcribe new samples: BISE020, BILP029 (transcribed by Whendy and AE during week of 10/4) - also completed.

  • Post not for Kesha’s paper, but transcribed because some pre samples were missing/bad audio and also because some postx were going to be used for AoA but weren’t used

  • Reliability only ran for POST- for Spanish, 4 transcriptions,

    • all ok, high reliability

• -VISTA samples - in progress re-revising transcriptions after new transcription rules.

  • Question about omitting BISE016’s frequent production of “&+ea”

  • https://cloud.wikis.utexas.edu/wiki/x/noFZAw question about how to code strange speech production with interword pause.

• Training Spanish transcribers

  • Alejandra - difficulty in tricky sample - reliability 80%, if she’s supervised - whisper runner!

  • Alexa - whisper runner!

•  meeting with them, orient them to the smartsheet, training for whisper,

• Lucian

CATALAN - SMK updates:

• Helena samples assigned, meeting will be scheduled when she finishes them and I check them

  •  1. give feedback, give 3 wabs to analyse
  •  2.Run rely with Ana Elisa
  •  3. Assign new samples to analyse

• Connected Speech WAB picnic scene - https://utexas.box.com/s/d7dpq68mcx2f28vxmpgul8fv52xlldtz questions

• VISTA samples -

  • report created for checking / https://app.smartsheet.com/reports/mFPxVQ3f5mChG788GjMhhQrrrRQ5XJf4cV2pMpQ1?view=grid will fill out columns of Status and coded accordingly

  • Errors?

    • *PAR: una vegada a la setmana anem [//] anar al supermercat perquè lo [/]
      lo porto, no ho porto. https://utexas.box.com/s/d4b3t20bjg1xtwkxqb2yvzt1biihnil3

    • unknown word: ibiscu, hibisc

      • *PAR: perquè tinc un ibiscu, un ficus xxx i varies geronis. https://utexas.box.com/s/ssybqahgzotre2y7m88nmxh4www8t5st

• Samples sent to kesha and andrew via teams chathttps://utexas.box.com/s/vmxbyo0an4iimym1k9h4wtgmabgmq92p

• Dashes issue solved? - confirm, clitics not an issue, always transcribe with dashes in Catalan

  •  update wiki

• Reliability reports for Dr. Santos: https://utexas.box.com/s/t2yczrmfebqiqn1q485zrxi0u9xhszde

• Instructions added for Rely: https://cloud.wikis.utexas.edu/wiki/x/jg9rDQ

• Rely run for PRE

  • PostTx WAB Picnic (Sept. 24)

  • PreTx WAB picnic (Oct. 29). Rely report before transcriptions were finalized here: https://utexas.box.com/s/oc356jopxoh0zqlp25ggdm8snnd6wart

  • BISE010 low reliability:

    • meeting for consensus (meeting SMK, WM, AE) - consensus made. Final transcription for BISE010 (tricky sample): https://utexas.box.com/s/ouslps2ot2u4c4chptljyu7n5j7z42qg

      • transcriptions of sounds, paraphasia vs distorsion vs unintelligible

      • Influence of Catalan, patient dominant in catalan, - code switches

        • Participant that is super catalan dominant - ask Sonia to transcribe

    • Samples with low reliability - meeting

    • Whendy and AE finalized the transcriptions on Oct. 29/31

    • Add columns: https://app.smartsheet.com/sheets/29c56pPH98JW66r6h7fxp8M3rM5cv6xQJqPJm4m1

      • column reliability total %

      • where the reliability output is found, link of box

• Back ups for transcriptions - copy always the folder before running to analysis

  •  Sonia Marqués update adding instruction to copy 11 Nov 2024

  https://cloud.wikis.utexas.edu/wiki/x/BYFZAw

• Decision with Andrew CAC

  • WAB picnic -

  • VISTA spontaneous probes -

• Decision Alexa and Alejandra rename audios from VISTA to remove 1 and 2 from Spa

  • And let clippers know that they should stop naming the files with 1 and 2

• Discuss proposal: https://utexas.box.com/s/ghd8ho1ciko1n2le94u796cnhcf57rgw

• Code-switching into English. What is the appropriate code?

Next tasks:

• develop clipping wiki: https://cloud.wikis.utexas.edu/wiki/x/twc-Dg with links to the clipping guide, etc.,

• to move MINT samples here: https://utexas.box.com/s/00jk6h0p5tw1900bcyuanr1sziqmsywe MINT samples are saved here: https://utexas.box.com/s/6dh0k3zje1xencqh5nh1mbdj8l8rttpx and check it here: https://app.smartsheet.com/reports/3Hg9hM3vq6QQcc7hQ7Cxv7rr79r5c8F6cx793j61 (important task!)

• start clipping MINTs using date of administration to find video in participant folder - Shayla access to redcap, export data, or ask SMK to create excel and add dates to the smartsheet

  • Add columns of MINT administration to the smartsheets