# \#electrophysiology **URL:** https://community.brain-map.org/tag/electrophysiology/26.md [Latest](https://community.brain-map.org/latest.md) · [Categories](https://community.brain-map.org/categories.md) · [Tags](https://community.brain-map.org/tags.md) --- ## [IPFX 2.1.2 Release Notice](https://community.brain-map.org/t/ipfx-2-1-2-release-notice/4796)
**Author:** [@t-b](https://community.brain-map.org/u/t-b)\ **Replies:** 0\ **Last updated:** [December 10, 2025, 7:40pm UTC](https://community.brain-map.org/t/ipfx-2-1-2-release-notice/4796 "2025-12-10T19:40:16Z")
The ipfx developers would like to announce the immediate availability of version 2.1.2 of ipfx released on the 10th Dec 2025 to pypi. Release highlights: Support python 3.14 and drop support for python 3.9 Support new… --- ## [Artificial Cerebrospinal Fluid Protocols Published in 2020](https://community.brain-map.org/t/artificial-cerebrospinal-fluid-protocols-published-in-2020/4219)
**Author:** [@RosalindWYZ42](https://community.brain-map.org/u/RosalindWYZ42)\ **Replies:** 5\ **Last updated:** [March 18, 2025, 10:03pm UTC](https://community.brain-map.org/t/artificial-cerebrospinal-fluid-protocols-published-in-2020/4219 "2025-03-18T22:03:43Z")
We have been using the method from Ting 2018 for aCSF solutions and recently found ACSF I-IX. I assume ACSF I, IV, and IX, correspond to perfusion/cutting/recovery, holding, and recording for mouse brain slices. These se… --- ## [IPFX 2.0.0 Release Notice](https://community.brain-map.org/t/ipfx-2-0-0-release-notice/3816)
**Author:** [@sheriferson](https://community.brain-map.org/u/sheriferson)\ **Replies:** 0\ **Last updated:** [October 28, 2024, 10:03pm UTC](https://community.brain-map.org/t/ipfx-2-0-0-release-notice/3816 "2024-10-28T22:03:19Z")
IPFX 2.0.0 was released to PyPI on October 28, 2024 What’s Changed Python 3.9/3.11 support, dropping Python 3.6 support, and moving to GitHub Actions Loosened a lot of dependencies pinned to old versions of libraries,… --- ## [A question about SPCA (Sparse Principal Component Analysis)of the ipfx package](https://community.brain-map.org/t/a-question-about-spca-sparse-principal-component-analysis-of-the-ipfx-package/3787)
**Author:** [@beilouer](https://community.brain-map.org/u/beilouer)\ **Replies:** 1\ **Last updated:** [October 21, 2024, 9:08pm UTC](https://community.brain-map.org/t/a-question-about-spca-sparse-principal-component-analysis-of-the-ipfx-package/3787 "2024-10-21T21:08:43Z")
Hello, I’m currently studying the electrophysiological data processing steps mentioned in the paper Consistent cross-modal identification of cortical neurons with coupled autoencoders, and I have a few questions: Are th… --- ## [Is response latency already removed from spike timings?](https://community.brain-map.org/t/is-response-latency-already-removed-from-spike-timings/3479)
**Author:** [@PeterBeech](https://community.brain-map.org/u/PeterBeech)\ **Replies:** 0\ **Last updated:** [July 15, 2024, 1:57pm UTC](https://community.brain-map.org/t/is-response-latency-already-removed-from-spike-timings/3479 "2024-07-15T13:57:07Z")
Hi, hopefully this is a quick question. It takes a different amount of time for the signal to travel from the retina to different units/regions in the brain, thus I wanted to be sure: is this response delay already acc… --- ## [Downloading/Accessing Electrophysiology Data for Lee et al., 2023](https://community.brain-map.org/t/downloading-accessing-electrophysiology-data-for-lee-et-al-2023/2658)
**Author:** [@Veritatem\_Amo](https://community.brain-map.org/u/Veritatem_Amo)\ **Replies:** 10\ **Last updated:** [January 2, 2024, 2:19am UTC](https://community.brain-map.org/t/downloading-accessing-electrophysiology-data-for-lee-et-al-2023/2658 "2024-01-02T02:19:39Z")
There is a new paper published this year, and I have found the SWC files for morphologies on GitHub. But I cannot find a way to access the electrophysiology sweeps (I used to access the Cell Type Database with AllenSDK, … --- ## [Patch-seq Method](https://community.brain-map.org/t/patch-seq-method/2700)
**Author:** [@racheld](https://community.brain-map.org/u/racheld)\ **Replies:** 0\ **Last updated:** [November 9, 2023, 12:25am UTC](https://community.brain-map.org/t/patch-seq-method/2700 "2023-11-09T00:25:38Z")
Patch-seq Method The method in which the morphology, electrophysiology and transcriptome (gene expression) profiles are assayed simultaneously from the same neuron. Here we detail the various steps and tools to generate… --- ## [IPFX analysis tool box - TTL input extraction](https://community.brain-map.org/t/ipfx-analysis-tool-box-ttl-input-extraction/2113)
**Author:** [@AnnaGalakhova](https://community.brain-map.org/u/AnnaGalakhova)\ **Replies:** 4\ **Last updated:** [August 3, 2023, 2:56pm UTC](https://community.brain-map.org/t/ipfx-analysis-tool-box-ttl-input-extraction/2113 "2023-08-03T14:56:43Z")
Hello everyone. I am using MIES to record and store my data in NWB format, and I use TTL as my input to stimulate extracellularly, although now when I want to get the stimulus TTL wave I can not get it. So I can get t,v … --- ## [Open for (neuro)science tutorials: New from the Allen Cell Types Database](https://community.brain-map.org/t/open-for-neuro-science-tutorials-new-from-the-allen-cell-types-database/963)
**Author:** [@kaitlync](https://community.brain-map.org/u/kaitlync)\ **Replies:** 5\ **Last updated:** [July 13, 2022, 8:04pm UTC](https://community.brain-map.org/t/open-for-neuro-science-tutorials-new-from-the-allen-cell-types-database/963 "2022-07-13T20:04:47Z")
Thanks for attending the webinar or viewing the video of the Open for (neuro)science tutorial: New from the Allen Cell Types Database, with @Luke\_E, Stephanie Seeman, and @gouwens! This webinar demonstrated how to use th… --- ## [Consecutive spikes within 1ms in the brain observatory electrophysiology data](https://community.brain-map.org/t/consecutive-spikes-within-1ms-in-the-brain-observatory-electrophysiology-data/1406)
**Author:** [@yonimayzel](https://community.brain-map.org/u/yonimayzel)\ **Replies:** 1\ **Last updated:** [January 9, 2022, 7:45pm UTC](https://community.brain-map.org/t/consecutive-spikes-within-1ms-in-the-brain-observatory-electrophysiology-data/1406 "2022-01-09T19:45:49Z")
Hi all, I’m interested in working with the brain observatory neuropixel data. I followed this quickstart tutorial and started exploring the data. Looking at single units spike times I noticed that in all sessions some … --- ## [IPFX 1.0.5 Release - Notice for involved](https://community.brain-map.org/t/ipfx-1-0-5-release-notice-for-involved/1377)
**Author:** [@MatthewAitken](https://community.brain-map.org/u/MatthewAitken)\ **Replies:** 0\ **Last updated:** [December 14, 2021, 5:36pm UTC](https://community.brain-map.org/t/ipfx-1-0-5-release-notice-for-involved/1377 "2021-12-14T17:36:42Z")
IPFX 1.0.5 was released 12/13/2021 Bugfixes: Convert nwb\_version attribute to string if it is in utf-8 encoded bytes. --- ## [IPFX 1.0.4 Release - Notice for involved](https://community.brain-map.org/t/ipfx-1-0-4-release-notice-for-involved/1212)
**Author:** [@MatthewAitken](https://community.brain-map.org/u/MatthewAitken)\ **Replies:** 0\ **Last updated:** [July 29, 2021, 6:26pm UTC](https://community.brain-map.org/t/ipfx-1-0-4-release-notice-for-involved/1212 "2021-07-29T18:26:22Z")
IPFX 1.0.3 was released 7/29/2021 Changed: selects recording rather than sweep epoch by default restructures epoch detection to use recording epoch for stim epoch detection Use NaNs instead of truncating Bug fixes: … --- ## [Creating misc-settings.json for mcc\_get\_settings](https://community.brain-map.org/t/creating-misc-settings-json-for-mcc-get-settings/1113)
**Author:** [@damian](https://community.brain-map.org/u/damian)\ **Replies:** 1\ **Last updated:** [June 4, 2021, 4:32pm UTC](https://community.brain-map.org/t/creating-misc-settings-json-for-mcc-get-settings/1113 "2021-06-04T16:32:31Z")
I’m trying to convert my abf files to nwb but unsure how to create the required misc-settings.json file. The example shows "IN0": "Demo1\_1", "IN1": "Demo1\_2", "ScaleFactors": { "C1NSD1SHORT": 1.05, … --- ## [Tracking mouse gaze on screen clarifications](https://community.brain-map.org/t/tracking-mouse-gaze-on-screen-clarifications/1103)
**Author:** [@Pete](https://community.brain-map.org/u/Pete)\ **Replies:** 2\ **Last updated:** [June 2, 2021, 12:03am UTC](https://community.brain-map.org/t/tracking-mouse-gaze-on-screen-clarifications/1103 "2021-06-02T00:03:02Z")
Hello everyone, First of all thanks for the amazing dataset, it really is full of useful information. I am working on the neuropixel data and I am trying to track the pupil movement of the mouse over the screen to comp… --- ## [Open for (neuro)science symposium: Day 2, Allen Brain Observatory](https://community.brain-map.org/t/open-for-neuro-science-symposium-day-2-allen-brain-observatory/985)
**Author:** [@kaitlync](https://community.brain-map.org/u/kaitlync)\ **Replies:** 0\ **Last updated:** [March 12, 2021, 1:04am UTC](https://community.brain-map.org/t/open-for-neuro-science-symposium-day-2-allen-brain-observatory/985 "2021-03-12T01:04:52Z")
Thanks for attending the webinar or viewing the video of the Open for (neuro)science symposium day 2: Allen Brain Observatory, featuring @saskiad, @joshs, @michaelbu, @jxiaoxuan, Peter Ledochowitsch, Yaniv Ziv, and Joel … --- ## [Open for (neuro)science tutorial: Allen Brain Observatory](https://community.brain-map.org/t/open-for-neuro-science-tutorial-allen-brain-observatory/981)
**Author:** [@kaitlync](https://community.brain-map.org/u/kaitlync)\ **Replies:** 0\ **Last updated:** [March 11, 2021, 11:52pm UTC](https://community.brain-map.org/t/open-for-neuro-science-tutorial-allen-brain-observatory/981 "2021-03-11T23:52:34Z")
Thanks for attending the webinar or viewing the video of the Open for (neuro)science tutorial: Allen Brain Observatory with @saskiad and @joshs! This webinar demonstrated how to use the 2-photon and Neuropixels datasets … --- ## [IPFX 1.0.3 Release - Notice for involved](https://community.brain-map.org/t/ipfx-1-0-3-release-notice-for-involved/975)
**Author:** [@MatthewAitken](https://community.brain-map.org/u/MatthewAitken)\ **Replies:** 0\ **Last updated:** [March 9, 2021, 7:14pm UTC](https://community.brain-map.org/t/ipfx-1-0-3-release-notice-for-involved/975 "2021-03-09T19:14:08Z")
IPFX 1.0.3 was released 3/9/2021 Changes include bugfixes and qc updates: Fixes memory leak in lru cache Fixes build and deployment errors Adds new qc tag and error handling for sweeps that have NaN’s in their stimulu… --- ## [MIES software abilities](https://community.brain-map.org/t/mies-software-abilities/960)
**Author:** [@blogeman](https://community.brain-map.org/u/blogeman)\ **Replies:** 9\ **Last updated:** [February 26, 2021, 8:15pm UTC](https://community.brain-map.org/t/mies-software-abilities/960 "2021-02-26T20:15:16Z")
I’m setting up a patch rig and would like to be able to perform Patch-seq experiments per the Allen Institute protocol. I would like to use the MIES set of software tools but have never used this software before. Is MIES… --- ## [Neuropixel - empty field in units](https://community.brain-map.org/t/neuropixel-empty-field-in-units/934)
**Author:** [@mook01](https://community.brain-map.org/u/mook01)\ **Replies:** 2\ **Last updated:** [February 8, 2021, 2:57pm UTC](https://community.brain-map.org/t/neuropixel-empty-field-in-units/934 "2021-02-08T14:57:52Z")
Hi all, I’m having a trouble to read neuropixel nwb file. I have downloaded all the data directly from api.brain-map.org instructed as here; ecephys\_data\_access But once I read a single session data with allensdk eph… --- ## [IPFX 1.0.2 Release - Notice for involved](https://community.brain-map.org/t/ipfx-1-0-2-release-notice-for-involved/880)
**Author:** [@sgratiy](https://community.brain-map.org/u/sgratiy)\ **Replies:** 0\ **Last updated:** [January 6, 2021, 9:42pm UTC](https://community.brain-map.org/t/ipfx-1-0-2-release-notice-for-involved/880 "2021-01-06T21:42:11Z")
IPFX 1.0.2 was released on 01/06/2021 Changes include performance and reporting improvements: Add “features\_state” information to the pipeline output json to help users track down possible failures. Improve performanc… --- ## [Showcase Symposium 2020 Project Talk Q&A: Patch-seq Pipeline and Discoveries](https://community.brain-map.org/t/showcase-symposium-2020-project-talk-q-a-patch-seq-pipeline-and-discoveries/831)
**Author:** [@kaitlync](https://community.brain-map.org/u/kaitlync)\ **Replies:** 4\ **Last updated:** [December 16, 2020, 7:15pm UTC](https://community.brain-map.org/t/showcase-symposium-2020-project-talk-q-a-patch-seq-pipeline-and-discoveries/831 "2020-12-16T19:15:58Z")
At our virtual Showcase Symposium 2020, Allen Institute for Brain Science teams present project talks highlighting their work. Please use this forum thread to ask questions for the speakers of the Patch-seq Pipeline and … --- ## [Mean waveforms for mouse intracellular waveforms](https://community.brain-map.org/t/mean-waveforms-for-mouse-intracellular-waveforms/818)
**Author:** [@EricKenjiLee](https://community.brain-map.org/u/EricKenjiLee)\ **Replies:** 2\ **Last updated:** [December 14, 2020, 5:58am UTC](https://community.brain-map.org/t/mean-waveforms-for-mouse-intracellular-waveforms/818 "2020-12-14T05:58:16Z")
Hi, I’m trying to obtain some mean waveforms for the mouse intracellular recorded waveforms as part of the Cell Types database and essentially my strategy was to, Find a sweep just above a neuron’s rheobase Detect spi… --- ## [GLIF custom input](https://community.brain-map.org/t/glif-custom-input/715)
**Author:** [@Jonasver](https://community.brain-map.org/u/Jonasver)\ **Replies:** 2\ **Last updated:** [October 29, 2020, 12:36pm UTC](https://community.brain-map.org/t/glif-custom-input/715 "2020-10-29T12:36:21Z")
Hi All, I am interested in the use of some of the GLIF models provided through the Cell Feature Search. I can download and run the models for the provided inputs without any trouble. What I struggle with however is to u… --- ## [Stimulus changes within electrophysiology data](https://community.brain-map.org/t/stimulus-changes-within-electrophysiology-data/669)
**Author:** [@Jiawei](https://community.brain-map.org/u/Jiawei)\ **Replies:** 2\ **Last updated:** [August 29, 2020, 3:21pm UTC](https://community.brain-map.org/t/stimulus-changes-within-electrophysiology-data/669 "2020-08-29T15:21:04Z")
Hi, I’m doing a research on the Multimodal Characterization of Individual Neurons dataset. After viewing the electrophysiology data, I found that within each sweep, the stimulus for different cells have different time d… --- ## [Questions on Timescale of Cell Types EPHYS data](https://community.brain-map.org/t/questions-on-timescale-of-cell-types-ephys-data/552)
**Author:** [@tbrassel](https://community.brain-map.org/u/tbrassel)\ **Replies:** 2\ **Last updated:** [June 16, 2020, 12:24am UTC](https://community.brain-map.org/t/questions-on-timescale-of-cell-types-ephys-data/552 "2020-06-16T00:24:27Z")
Hello, my name is Tyler Brassel with the QUON-titative biology lab. Our team is interested in applying deep learning approaches to analyze the Allen Cell Types Database and we have a few questions regarding the EPHYS dat… --- ## [Where's the data for spike width, and what are all these features?](https://community.brain-map.org/t/wheres-the-data-for-spike-width-and-what-are-all-these-features/432)
**Author:** [@ajuavinett](https://community.brain-map.org/u/ajuavinett)\ **Replies:** 6\ **Last updated:** [May 13, 2020, 1:00am UTC](https://community.brain-map.org/t/wheres-the-data-for-spike-width-and-what-are-all-these-features/432 "2020-05-13T01:00:36Z")
Hi all! In the documentation for the Cell Types Database, there’s a mention of spike width as a derived metric for single spikes, however I don’t see it on the website or when I pull the data from the SDK. Is this metri… --- ## [Downloading cell input resistance values from electrophysiology data](https://community.brain-map.org/t/downloading-cell-input-resistance-values-from-electrophysiology-data/472)
**Author:** [@stuartcain](https://community.brain-map.org/u/stuartcain)\ **Replies:** 2\ **Last updated:** [March 5, 2020, 6:21pm UTC](https://community.brain-map.org/t/downloading-cell-input-resistance-values-from-electrophysiology-data/472 "2020-03-05T18:21:54Z")
Hi, Apologies if this has been posted before, I tried searching for “input resistance” in the forum but no hits. I downloaded the excel sheet of ephys data on cell types here: https://celltypes.brain-map.org/data I a… --- ## [Ephys sweeps of same cell has different recording length?](https://community.brain-map.org/t/ephys-sweeps-of-same-cell-has-different-recording-length/409)
**Author:** [@Eskuebler](https://community.brain-map.org/u/Eskuebler)\ **Replies:** 1\ **Last updated:** [January 21, 2020, 5:28pm UTC](https://community.brain-map.org/t/ephys-sweeps-of-same-cell-has-different-recording-length/409 "2020-01-21T17:28:26Z")
Hello, Is it possible for the same cell to have different sweep lengths for the same stimulus? Or is this a curation error? I have found some cells that have varying sweep lengths for the long current pulse; but the sam… --- ## [Is there an extracellular recording database available for the Brain Observatory?](https://community.brain-map.org/t/is-there-an-extracellular-recording-database-available-for-the-brain-observatory/31)
**Author:** [@justin](https://community.brain-map.org/u/justin)\ **Replies:** 1\ **Last updated:** [October 30, 2019, 5:23pm UTC](https://community.brain-map.org/t/is-there-an-extracellular-recording-database-available-for-the-brain-observatory/31 "2019-10-30T17:23:20Z")
We currently only have 2-photon imaging. We are planning to collect and release high density electrophysiological data in the future.