https://crcns.org These are the search results for the query, showing results 331 to 345. https://crcns.org/forum/using-datasets/132964202/206446485 Is there a pattern of how the data is saved per tetrode to know which is ca1 and which is ca3? The documents don't seem to name a pattern aside from looking up each one. They seem to be randomly saved. If not, any links to Matlab software that can parse each of these?  Hopefully, I am not overlooking a simple detail.  No publisher kwcooper 2017-03-02T19:36:54Z Comment https://crcns.org/forum/using-datasets/132964201/577659363 Dear Profs. Ruben Coen-Cagli, Adam Kohn, Odelia Schwartz,       Very thanks for sharing the data pvc-8. I wanna make sure whether neurons in the same session recorded simultaneously? For each moment, is every image represented in the RF of every neuron simultaneously?  Thanks for your answer in advance. Best, Zhiqin John Xu (Post-doc @NYUAD, zhiqinxu@nyu.edu) No publisher xuzhiqin1990 2017-02-25T14:27:46Z Comment https://crcns.org/forum/using-datasets/132964200/10759712 Hello, I am working with the vim-2 data in the pyrcca neuroimaging example. The obtained data are: Functional data: VoxelResponses_subject1.mat VoxelResponses_subject2.mat VoxelResponses_subject3.mat Anatomical data: S1_anatomy.nii S2_anatomy.nii S3_anatomy.nii When i am running the example code i get an error when it tries to obtain the mask. Mask not found, generating... Traceback (most recent call last):   File "/home/c10530274/untitled.py", line 24, in <module>     mask = cortex.db.get_mask(subjects[subj], xfms[subj], type = 'thick')   File "/home/c10530274/pycortex/cortex/database.py", line 526, in get_mask     mask = get_cortical_mask(subject, xfmname, type)   File "/home/c10530274/pycortex/cortex/utils.py", line 99, in get_cortical_mask     dist, idx = get_vox_dist(subject, xfmname)   File "/home/c10530274/pycortex/cortex/utils.py", line 133, in get_vox_dist     xfm = db.get_xfm(subject, xfmname)   File "/home/c10530274/pycortex/cortex/database.py", line 433, in get_xfm     xfmdict = json.load(open(fname)) IOError: [Errno 2] No such file or directory: u'/home/c10530274/pycortex/filestore/db/S1/transforms/S1_xfm/matrices.xfm' [Finished in 1.6s with exit code 1] It appears that the subjects's corresponding xfm files are needed to succesfully get the mask. ./db/S1 map is  generated during pycortex installation. i tried to delete this to check if the xfm for subject s1 was generated but it did not. Am i missing something? Is there a way to obtain the xfms file? I attached the used code. Greetings, Dirk   No publisher dzomerdijk 2017-02-21T14:33:14Z Comment https://crcns.org/forum/using-datasets/215275256/759643437 I have a couple quick questions regarding how the trials are aligned. I'm specifically looking at ofc-1/N1/040624 as a starting point. TE = load('/ofc-1/N1/040624/TrialEvents2.mat') load('../data/ofc-1/N1/040624/Sc1_1.mat') % loads spike times as `TS` variable My goal at this point is to make a sparse matrix holding a raster of  (trials x time) for this neuron with each trial aligned to the initial poke into the odor port. 1) The first trial start time is TE.TrialStart(1) is NaN. Why? 2) Am I right to guess that the trial start times are in seconds and the spike times are measured in tenths of milliseconds? The first spike time is 9.2450e+05 and the last trial start is 5.3761e+03. It seems like I need to divide TS by 1e4 to get something reasonable. Thanks, -- Alex No publisher ahwillia 2017-01-10T03:45:07Z Comment https://crcns.org/forum/using-datasets/732257433/200728219 Hi! I would also like to know about this, specifically for the linear/linearOne/linearTwo experiments. I thought that in these experiments, the animal would be restricted to a 1D linear track, but the .whl files (location data) have data for x and y coordinates, both of which exhibit significant movement. Were the tracks not linear or am I interpreting linear differently? Appreciate any help! Best,   Kush   No publisher kush 2019-12-23T03:39:57Z Comment https://crcns.org/forum/using-datasets/541720103/648613874 Dear Richard, 1) I am sure that EE and FF should contain 104 channels (64ch PFC, 32ch CA1, 8ch for behavior signals) and GG should contain 101 channels (64ch PFC, 32ch CA1, 5ch for behavior signals), if the files are not broken. How did you decode it? For checking .eeg files, Neuroscope is a good free software, which is avaiable at: http://neurosuite.sourceforge.net/   2) Yes, the session length information in PDF is apporoximate one, and the length of the .dat (20kHz) or .eeg (1250Hz) files are more accurate.   3) GG has a sampling rate of 1250Hz for .eeg file. Again, maybe your decoding method would not perfectly fit with our data style.   Best, Shigeyoshi Fujisawa   No publisher sfujisawa 2018-02-09T04:46:22Z Comment https://crcns.org/forum/using-datasets/963823729/684405056 I'm analyzing the local field potential and spiking data in the hc5 data set using the matlab data files ending in 'eeg_1250Hz.mat'. However, in two of the sessions (08.001 and 15.002), the LFP is only available for one or two of the shanks (as opposed to the other files which has the LFP for all shanks that have units). Two additional sessions (08.004 and 15.001) don't have this file. I'm trying to match up the spiking (by shank) in the files ending in '_BehavElectrData.mat' to the LFPs (one per shank) in the files mentioned above. In the instances I mentioned above in which the _eeg_1250Hz.mat files don't exist, how can I get the relevant LFPs? I tried using the LoadBinary function from hc2 on the .eeg files, and I can get LFPs for all channels that way. But then I do not see any information on how they correspond to each cluster in '_BehavElectrData.mat'. Thanks for any help on this. No publisher srcole 2017-03-16T00:39:59Z Comment https://crcns.org/forum/general/743306207/171769084 (Originally posted, March 20, 2008). I will ask the question that probably others will have too, so not to repeat, you could answer it here: If we update/add the data in the dataset, is the download page/links updated automatically, zip files are generated ..etc. Or one has to notify you when this happens? Another question: since lot's of data being shared has common denominator in terms of analysis/processing (e.g. extracellular or intracellular recordings), would it be useful to generate a common software repository, where data owners and contributors who use the data could contribute their code/ideas/etc.. Those will be common for similar data types. Anton No publisher admin 2009-02-23T20:21:50Z Comment https://crcns.org/marketplace/vote-for-data-sets/240557961/979840371 GUIDELINE FOR DATA USERS: What is "vote for a data set"? The purpose of the "vote for a data set" section is to gage the interest in a data set which could be made available for sharing.  If you vote for a data set this indicated interest, which encourages the experimentalists to make the data available, and also makes the preparation of the data set easier to fund.   How to vote for a data set. To vote for a data set, please 1. register on this site , 2. login , then 3) "vote" via the site contact form (link on upper right).  Please include the following information:     - Name of the data set (from title of the announcement post).     - Your full name.     - Your affiliation.     - If post-doc or student, the name of the lab you are affiliated with.     - Previous experience analyzing neurophysiology data (if any).     - Brief explanation of why you would find the data useful and what you would like to use if for. Note: Comments about the data (using the forum) are welcome, but such comments do not count as a "vote" for the dataset (described above).  So if you would like a data set made available, even if you include a forum comment, please also follow the above instructions to send us the request.   Directly contacting contributor. If (in addition to voting) you are considering contacting a contributor directly to inquire about getting access to the data, first, please check the post describing the data set to be sure that the contributor has not requested not to be contacted.  Also, be aware that the data sets listed in this section are normally not in a form that is ready for sharing and it thus may require substantial work for the contributor to prepare the data before you would be able to use it.  The contributor may not wish to do this work or may request assistance from you to help prepare the data. If you contact the contributor and it leads to a collaboration, please acknowledge CRCNS.org in resulting publications. After the project is completed, we strongly encourage you to help prepare the data set for making it publicly available.  It will be requested that any publications resulting from the shared data acknowledge the help you provided.   GUIDELINE FOR DATA CONTRIBUTERS: Use the "Vote for Data Set" marketplace to announce data sets which you would consider making available if there is sufficient interest.  In the announcement, you may wish to specify whether or not it's OK for people who are interested in your data to contact you directly.  You also might want to think about how you would respond if someone does contact you.  Since sharing the data requires work on your part, you may want to require preconditions for gaining access to the data.   For example, in exchange for getting access you may request that a data user help prepare the data for sharing to the general community.  It is suggested that you not make an exclusive agreement with someone (preventing all others from accessing) unless it is for a limited time and is in exchange for something that benefits you (such as a collaboration or help in making the data available to the general community). No publisher admin 2009-02-23T18:39:56Z Comment https://crcns.org/marketplace/vote-for-data-sets/240557960/291287320 About the data sets. If there is sufficient interest, two data sets measuring the light response of Hermissenda photoreceptors can be made available. Both sets of data were collected with the software Pulse.  The data sets are: (1) Voltage clamp data measuring the light induced currents in type B photoreceptors as a function of light duration (30 ms to 3 sec) light intensity, and holding potential.  Separation of the light induced sodium currents (measured in the presence of barium) and the light induced potassium currents (measured in the presence of 0 Na - TMA). This data was reported in (Blackwell KT. The effect of intensity and duration on the light-induced sodium and potassium currents in the Hermissenda type B photoreceptor. J Neurosci. 2002 May 15;22(10):4217-28). (2) Current clamp data from both type A and type B photoreceptors measuring the effect of light duration and light intensity.  This data was reported in: Mo JL, Blackwell KT. Comparison of Hermissenda type a and type B photoreceptors: response to light as a function of intensity and duration. J Neurosci. 2003 Sep 3;23(22): 8020-8). How to vote for (request) these data sets. To request these data sets, follow the instructions in the post " About voting for a data set ". No publisher admin 2009-02-23T18:32:25Z Comment https://crcns.org/forum/general/461136636/861005616 Hi, I'm a little new to using the Buzsaki lab code, and some of their functions are not making complete sense to me. Can anybody explain what bz_LoadBinary is used for? And also how I can use it to extract video frame data from my Neuroscope .dat file? No publisher zysf 2020-02-09T20:20:29Z Comment https://crcns.org/forum/using-datasets/889853949/685204356 Previously Dmitry Kobak wrote: Hi. TrialEvents.mat files do not include "hundreds of experiments". They describe hundreds of *trials* in one experimental session. Spike time arrays for each neuron are spike times throughout the whole recording session. TrialEvents.mat file tells you when each trial started, ended, what kind of trial it was, etc. Does it make sense?   Thanks for your suggestion, and I am trying on your solution. I have come up with a new question. If the spike train is the signal of the whole time, why the OdorPokeIn and OdorPokeOut in TrailEvents.mat are overlapping? For instance, in trial X those time is 1.7(start)-1.9(end), but in trial Y those time is 1.8(start)-2.0(end). And there is also a variable named TrialStart, but its value is too small(because the sampling frequency is 31.25kHz). With these confusion, I wonder if my understanding was somewhere wrong. Thanks again anyway for your reply!   No publisher muziriyue 2016-12-29T01:18:09Z Comment https://crcns.org/forum/using-datasets/889853949/708652880 Under the top-level folders of five rats, there are different days of experiments. And in these subfolders of different days, there are different spike time array of single neuron. But in the same subfolder, there is TrialEvents.mat and TrialEvents2.mat, which includes the experiment parameters. However, it includes not only one experiment, but hundreds of experiments while the single neuron spike time file only contains one spike train of single experiment. I am confused which number of the TrailEvents.mat is corresponding to the single neuron spike train. I wonder the data is somehow incomplete? Thanks for any response. No publisher muziriyue 2016-12-26T12:55:12Z Comment https://crcns.org/forum/general/743306207/655374727 Originally posted: March 24, 2008. Hi Anton, When a data set is prepared for downloading, I create a "downloads" directory in the FTP area that the data contributor used to upload the data.  This "downloads" directory is named something like "crcns-xxx-downloads" (where "xxx" is replaced by an abbreviation for that data set; e.g. hc1).  Data contributors can access and change the contents of their "downloads" directory via the same FTP account used to upload data.  Any content put into the "downloads" directory will be immediately available for downloading.  zip files are not created automatically.  If content not in the "downloads" directory is updated, let me know what is changed and I will copy the new content into the directory (and create new zip files if appropriate). About your second question (common software repository to share contributed code and ideas):  Thanks for the suggestion.  In the future we may do this.  Please let us know (by private email or the contact form) if there are any specific item(s) you think should be included in such a repository.   Also, please let us know if there are resources already on-line which should be added (linked to) from the "Other Resources" section of this site. -Jeff   Previously wrote: (Originally posted, March 20, 2008). I will ask the question that probably others will have too, so not to repeat, you could answer it here: If we update/add the data in the dataset, is the download page/links updated automatically, zip files are generated ..etc. Or one has to notify you when this happens? Another question: since lot's of data being shared has common denominator in terms of analysis/processing (e.g. extracellular or intracellular recordings), would it be useful to generate a common software repository, where data owners and contributors who use the data could contribute their code/ideas/etc.. Those will be common for similar data types. Anton   No publisher admin 2009-02-24T21:37:02Z Comment https://crcns.org/forum/using-datasets/560389486/972729416 Dear Sajad Karami, There are two demo matlab scripts that show how to obtain PSTH and behavioral performance. The demos are in: /alm-1/matlab_scripts/demos/ Please also see documentations provided with the dataset. Best, Nuo No publisher linuo 2018-03-02T21:56:54Z Comment