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# **Seedlings Wiki[now quite out of date, go here instead; https://bergelsonlab.gitbook.io/blab/data-pipeline ]** # ![enter image description here][1] ### **General** ### [HowTos][2] [AnnotationNotes][3]: check this **every** time you annotate! [Networking][4] [Organization][5] [Visit Protocols][6] [Recruitment Scripts (and what to do when the phone rings and you freeze like a deer in headlights)][7] ### **Useful Lists** ### [Lab Internal Google Docs: Common Word Index, Work Log, Crash Log][8] [Glossary][9] - This explains the various lab jargon [Bergelson Lab Wiki][10] - The OSF Wiki for the Bergelson Lab ### **Scripts and Misc** ### Make sure you have the latest version of the scripts in the Github folder on the desktop. More info on Git/Github [\[here\]][11] [addscrubtier][12] * see directions on how to use this under [AddScrub][13], or see complete directions on how to scrub audio files under [AudioScrub][14] [audio_consensor][15] [audiowords][16] * see directions on how to use this under [Lena][17] [basicleveltidy][18] * see directions on how to use this under [BasicLevelTidy][19] [batchexport][20] * see directions on how to use this under [BatchExport][21] [batch_volume_change][22] script for changing a whole directory of files into the right_silent_72db kind of file for the eyetracking experiment<BR> * see directions on the [Making Audio Stims][23] page [clanstats][24] for checking lena speaker classifier performance * see directions on how to use this under [Clanstats][25]. [compare_columns][26] script for video consensus * see directions on how to use this under [DataVyuConsensusCheck][27] [datavyu_scripts][28] for Datavyu entry format checking * see directions on the [Datavyu Scripts][29] page [filegrouper][30] library for grouping different files in a directory * see directions on the [Filegrouper][31] page fix-speakercodes * see directions on how to use this under [FixSpeakerCodes][32] [idslabel][33] * see directions on how to use this under IDSLabel [newclan][34] * see directions on how to use this under [NewClan][35] [parse_clan][36] script to turn the audio annotation **.cex** file into a wordtable for [BasicLevelAnnotation][37]. * see directions on how to use this in [ClanA][38] [parse_clan2][39] script to turn the audio annotation **.cha** file into a wordtable (same as original parse_clan, but for the new Clan format) * see directions on how to use this in [parse_clan2][40] [pbwavlength][41] * see directions on how to use this in [PBWavLength][42] [pyclan][43] library for parsing CLAN files and extracting information out of them * see the ipython notebook with examples [here][44] [pylena][45] library for parsing lena5min files and subsampling them * see the ipython notebook examples of usage [here][46] [speakers][47] * see directions on how to use this in [Speakers][48] [videoscrub][49] for muting/masking personal info in video files * see directions on how to use this in [Videoscrub][50]. [wordcompare][51] * see directions on how to use this in [WordCompare][52] [wordmerge][53] * see directions on how to use this in [WordMerge][54] [subregsplice][55] * see direction on how to use this in [SubRegSplice][56] [subjfilecrawl][57] * see directions on how to use this in [Subjfilecrawl][58] CHECK [Qualtrix Surveys][59] [Old Versions][60] [1]: https://donnellydailyapple.files.wordpress.com/2015/02/research1.jpg [2]: https://osf.io/cxwyz/wiki/How-Tos%20&%20Protocols/ [3]: https://osf.io/cxwyz/wiki/Annotation%20Notes/ [4]: https://osf.io/4rcjd/wiki/Networking/ [5]: https://osf.io/4rcjd/wiki/Organization/ [6]: https://osf.io/cxwyz/wiki/Visit%20Protocols/ [7]: https://osf.io/cxwyz/wiki/Scripts/ [8]: https://osf.io/4rcjd/wiki/Internal%20Documents/ [9]: https://osf.io/cxwyz/wiki/Glossary/ [10]: https://osf.io/3qg96/wiki/home/ [11]: https://osf.io/cxwyz/wiki/Git/ [12]: https://github.com/SeedlingsBabylab/addscrubtier [13]: https://osf.io/cxwyz/wiki/addscrubtier/ [14]: https://osf.io/4rcjd/wiki/Audio%20Scrubbing/ [15]: https://github.com/SeedlingsBabylab/audio_consensor [16]: https://github.com/SeedlingsBabylab/audiowords [17]: https://osf.io/cxwyz/wiki/Audio%20Processing/ [18]: https://github.com/SeedlingsBabylab/basicleveltidy [19]: https://osf.io/4rcjd/wiki/basicleveltidy/ [20]: https://github.com/SeedlingsBabylab/batchexport [21]: https://osf.io/cxwyz/wiki/Exporting%20Subject%20Data/ [22]: https://github.com/SeedlingsBabylab/batch_volume_change [23]: https://osf.io/cxwyz/wiki/Making%20New%20Audio%20Stimuli/ [24]: https://github.com/SeedlingsBabylab/clanstats [25]: https://osf.io/cxwyz/wiki/clanstats/ [26]: https://github.com/SeedlingsBabylab/compare_columns [27]: https://osf.io/cxwyz/wiki/Datavyu%20Consensus%20Process/ [28]: https://github.com/SeedlingsBabylab/datavyu_scripts [29]: https://osf.io/cxwyz/wiki/Datavyu%20Scripts/ [30]: https://github.com/SeedlingsBabylab/filegrouper [31]: https://osf.io/cxwyz/wiki/Filegrouper/ [32]: https://osf.io/cxwyz/wiki/fix_speakercodes.rb/ [33]: https://github.com/SeedlingsBabylab/idslabel [34]: https://github.com/SeedlingsBabylab/newclan [35]: https://osf.io/4rcjd/wiki/newclan/ [36]: https://github.com/SeedlingsBabylab/parse_clan [37]: https://osf.io/cxwyz/wiki/Basic%20Level%20Words/ [38]: https://osf.io/cxwyz/wiki/Audio%20Annotation/ [39]: https://github.com/SeedlingsBabylab/parse_clan2 [40]: https://osf.io/4rcjd/wiki/ParseClan2/ [41]: https://github.com/SeedlingsBabylab/pbwavlength [42]: https://osf.io/4rcjd/wiki/pbwavlengths/ [43]: https://github.com/SeedlingsBabylab/pyclan [44]: https://github.com/SeedlingsBabylab/pyclan/blob/master/pyclan_examples.ipynb [45]: https://github.com/SeedlingsBabylab/pylena [46]: https://github.com/SeedlingsBabylab/pylena/blob/master/tests/pylena_examples.ipynb [47]: https://github.com/SeedlingsBabylab/speakers [48]: https://osf.io/4rcjd/wiki/speakers/ [49]: https://github.com/SeedlingsBabylab/videoscrub [50]: https://osf.io/cxwyz/wiki/Video%20Scrubbing/ [51]: https://github.com/SeedlingsBabylab/wordcompare [52]: https://osf.io/4rcjd/wiki/WordCompare/ [53]: https://github.com/SeedlingsBabylab/wordmerge [54]: https://osf.io/4rcjd/wiki/WordMerge/ [55]: https://github.com/SeedlingsBabylab/subregsplice [56]: https://osf.io/cxwyz/wiki/Subregion%20Splicing/ [57]: https://github.com/SeedlingsBabylab/subjfilecrawl [58]: https://osf.io/cxwyz/wiki/Subjfilecrawl/ [59]: https://osf.io/4rcjd/wiki/response_id/ [60]: https://osf.io/4rcjd/wiki/Old%20Versions/