MouseLand/Kilosort issues and pull requests

#567 - issue with whitening when electrode locations are duplicated

Issue - State: closed - Opened by magland over 1 year ago - 1 comment

#566 - should handle case of no isolated spikes found in a batch

Issue - State: closed - Opened by magland over 1 year ago

#565 - Make NchanTOT, n_chan_bin required settings

Issue - State: closed - Opened by jacobpennington over 1 year ago

#564 - Get around channel map adjacency bias?

Issue - State: closed - Opened by robisonwr over 1 year ago

#563 - NPX 1.0 tetrode channel map

Issue - State: closed - Opened by chris-angeloni over 1 year ago - 1 comment

#562 - Kilosort3 returns units with 0 spikes after sorting

Issue - State: closed - Opened by steevelaquitaine over 1 year ago

#561 - about the appropriate kilosort and settings for wire bundle with unknown geometry

Issue - State: closed - Opened by harish2006 over 1 year ago

#560 - Little fix for 'eig did not converge' crash (Kilosort 2.0)

Pull Request - State: closed - Opened by DradeAW over 1 year ago - 3 comments

#559 - Unable to perform assignment because the size of the left side is 16-by-6-by-5795 and the size of the right side is 16-by-3-by-5795.

Issue - State: closed - Opened by vknorman over 1 year ago - 3 comments

#558 - Installation failure: VS/CUDA/Matlab compatibility

Issue - State: closed - Opened by ckfaber over 1 year ago - 1 comment

#557 - CUDA_ERROR_ILLEGAL_ADDRESS during learning (with kilosort2)

Issue - State: closed - Opened by mahlzahn over 1 year ago

#556 - Error while Spike extraction for clustering

Issue - State: closed - Opened by shivamkant over 1 year ago

#555 - Kilosort 2 non-zero exit code

Issue - State: closed - Opened by farazmoradi over 1 year ago

#554 - Error After Preprocessing

Issue - State: closed - Opened by NMTorrens over 1 year ago - 1 comment

#553 - Packaging Kilosort for use without a Matlab license

Issue - State: closed - Opened by yqushair over 1 year ago - 1 comment

#552 - Installation Issue

Issue - State: closed - Opened by sdcushing over 1 year ago - 3 comments

#551 - Severe over-splitting in KS3

Issue - State: closed - Opened by RikkelBob over 1 year ago - 4 comments

#550 - Issue on sorting concatenated runs

Issue - State: closed - Opened by thugeun over 1 year ago - 2 comments

#549 - Combining results from multiple runs.

Issue - State: closed - Opened by MirArt94 over 1 year ago

#548 - when will Kilosort 4.0 be available

Issue - State: closed - Opened by AthiemoneZero over 1 year ago

#547 - .

Issue - State: closed - Opened by kermit000000 over 1 year ago

#546 - match snippets against custom templates

Issue - State: closed - Opened by DanEgert over 1 year ago

#545 - Kilosort 3.0 compatibility with Phy

Issue - State: closed - Opened by Aexolowski over 1 year ago

#544 - Bug: Hardcoded spkTh parameter in datashift2

Issue - State: closed - Opened by dervinism over 1 year ago

#543 - Running KS3 without drift correction

Issue - State: closed - Opened by dervinism over 1 year ago

#542 - Preprocessing removes good spikes?

Issue - State: closed - Opened by jazlynntan over 1 year ago - 5 comments

#541 - kilosort repo not found, or inaccessible

Issue - State: closed - Opened by wujixuezhe over 1 year ago - 4 comments

#540 - How to get the PC_features.npy for all spikes by kilosort3?

Issue - State: closed - Opened by PathwayinGithub almost 2 years ago - 3 comments

#539 - Channel Map File for Cambridge Neurotech H6 Molex ASSY 236

Issue - State: closed - Opened by ryanlash2 almost 2 years ago - 1 comment

#538 - How to fix error with umap and TemplateController?

Issue - State: closed - Opened by aliley22 almost 2 years ago

#537 - rezToPhy2 isn't writing real channel map

Issue - State: closed - Opened by akel123 almost 2 years ago - 14 comments

#536 - Complex spikes

Issue - State: closed - Opened by caspervanlaar almost 2 years ago

#535 - Git not listed as a dependency

Issue - State: closed - Opened by dervinism almost 2 years ago

#534 - Can I run kilosort on GPU of apple silicon chip, like M1 or M2?

Issue - State: closed - Opened by KickStart10032 almost 2 years ago - 1 comment

#533 - Electrode map for long column bank selection in Neuropixels 1.0

Issue - State: closed - Opened by SiddharthaJoshiLC almost 2 years ago - 2 comments

#532 - Using phylib to get waveforms

Issue - State: closed - Opened by jofrony almost 2 years ago - 1 comment

#531 - Scaling factor for int16

Issue - State: closed - Opened by mvincenziit almost 2 years ago

#530 - Use more feature in manual sorting

Issue - State: closed - Opened by dwhzlh2021 about 2 years ago

#529 - Preprocessing error: CUDA_ERROR_ILLEGAL_ADDRESS

Issue - State: closed - Opened by aepadilla4 about 2 years ago - 3 comments

#528 - Kilosort 2 without channel map

Issue - State: closed - Opened by robisonwr about 2 years ago - 7 comments

#527 - CUDA error invalid configuration argument (KS 2.5)

Issue - State: closed - Opened by aloksneurobot1 about 2 years ago - 2 comments

#526 - How to extract the waveform of each spike?

Issue - State: closed - Opened by jiumao2 about 2 years ago - 1 comment

#525 - `Error using indexing Subscript indices must either be real positive integers or logicals.` probably actually caused by low values for `dati` in `shift_batch_on_disk2`

Issue - State: closed - Opened by tiburona about 2 years ago - 1 comment

#524 - `Error using matlab.internal.math.interp1 The sample points must be finite.`

Issue - State: closed - Opened by tiburona about 2 years ago - 1 comment

#523 - Spike Waveform PCs

Issue - State: closed - Opened by saman-abbaspoor about 2 years ago

#522 - Channels disconnected in the default neuropixPhase3A channel map

Issue - State: closed - Opened by przemyslawj about 2 years ago - 1 comment

#521 - mexSVDsmall2

Issue - State: closed - Opened by daisy-zsn about 2 years ago

#520 - ImportError: DLL load failed while importing _device:

Issue - State: closed - Opened by leterraiozz about 2 years ago

#519 - Error using gpuArray/nan on unpadded data

Issue - State: closed - Opened by thosvarley about 2 years ago - 2 comments

#518 - Combining 2.5 drift correction with 2.0 template tracking

Issue - State: closed - Opened by JonathanAMichaels about 2 years ago

#517 - Issue with kilosorting 4-shank probe data

Issue - State: closed - Opened by antaramaj16 over 2 years ago - 1 comment

#516 - Raw Amplitude View Not showing Up

Issue - State: closed - Opened by pstarski over 2 years ago - 3 comments

#515 - Problem with mexGPUall

Issue - State: closed - Opened by freyja87 over 2 years ago - 5 comments

#514 - Issue with running mexGPUall

Issue - State: closed - Opened by FrushBird over 2 years ago - 1 comment

#513 - Closed

Issue - State: closed - Opened by jordanallen291 over 2 years ago

#512 - Issue with ephys data file? Error running Kilosort: An unexpected error occurred trying to launch a kernel. The CUDA error was: invalid configuration argument

Issue - State: closed - Opened by dakotablackman over 2 years ago - 1 comment

#511 - Installation Issues

Issue - State: closed - Opened by wensontang over 2 years ago - 1 comment

#510 - Small variations in timing of spikes produce several clusters

Issue - State: closed - Opened by guilhemibos over 2 years ago - 2 comments

#509 - Saved files use absolute paths

Issue - State: closed - Opened by lukebemish over 2 years ago - 1 comment

#508 - Weird results/wrong params?

Issue - State: closed - Opened by guilhemibos over 2 years ago - 1 comment

#507 - Trouble with the Estimated drift traces

Issue - State: closed - Opened by Minako-375 over 2 years ago - 2 comments

#506 - Out of memory on device kilosort 3

Issue - State: closed - Opened by lmontelisciani over 2 years ago - 3 comments

#505 - Spikes not detected Kilosort 2 and 3 - Tetrode data

Issue - State: closed - Opened by Zoe0793 over 2 years ago - 6 comments

#504 - whitening_mat.npy problem

Issue - State: closed - Opened by blinklab over 2 years ago - 4 comments

#503 - Custom templates/spike waveforms similarity index

Issue - State: closed - Opened by GrimmSnark over 2 years ago - 2 comments

#502 - Incorrect use of gpuArray/subsref : when I was using 16 linear channel EP data

Issue - State: closed - Opened by AmaranthCao over 2 years ago - 2 comments

#501 - Can't read the .bin file with error: Index exceeds the number of array elements. Index must not exceed 4.

Issue - State: closed - Opened by AmaranthCao over 2 years ago - 5 comments

#500 - optimizing main sorting parameters

Issue - State: closed - Opened by DanEgert over 2 years ago - 1 comment

#499 - Different results on different computers/GPUs

Issue - State: closed - Opened by ZiadAli over 2 years ago - 1 comment

#498 - [Kilososrt 2.5] Phy doesn't recognize cluster groupings from Kilosort output file 'cluster_group.tsv'

Issue - State: closed - Opened by djhavert over 2 years ago - 2 comments

#497 - CUDA error when beginning main optimization

Issue - State: closed - Opened by Wenqing-1 over 2 years ago - 1 comment

#496 - Could anyone please show the data structure of standard .bin file for Kilosort or the instructions for how to write a now probe layout

Issue - State: closed - Opened by AmaranthCao over 2 years ago - 2 comments

#495 - Issue for converting output file to .bin file

Issue - State: closed - Opened by AmaranthCao over 2 years ago

#494 - Kilosort3 not producing pc_features.npy file

Issue - State: closed - Opened by mtvrdic1 almost 3 years ago - 3 comments

#493 - Error when using LongCol_1shank.imro

Issue - State: closed - Opened by ananmoran almost 3 years ago

#492 - Always return files with all zeros in datashift2 in KiloSort3

Issue - State: closed - Opened by HR0098 almost 3 years ago - 1 comment

#491 - Question: Does Kilosort only look for drift along the y-axis?

Issue - State: closed - Opened by djhavert almost 3 years ago - 1 comment

#490 - Converting Pl2 file data to raw binary file

Issue - State: closed - Opened by NMTorrens almost 3 years ago - 1 comment

#489 - Parallel processing in KS

Issue - State: closed - Opened by ananmoran almost 3 years ago - 1 comment

#488 - problems with processing full dataset

Issue - State: closed - Opened by rclein94 almost 3 years ago

#487 - Strange 'chunks' in TraceView linked possibly to Nblocks and temp_wh.dat

Issue - State: closed - Opened by rf13734 almost 3 years ago

#486 - eMouse drift output cluster metrics

Issue - State: open - Opened by GrimmSnark almost 3 years ago

#485 - kilosort GUI shows no prediction before clustering

Issue - State: closed - Opened by Minako-375 almost 3 years ago - 2 comments

#484 - Waveforms not aligned in time

Issue - State: open - Opened by skeltoh almost 3 years ago - 2 comments

#483 - Error running eMouse_drift in find_merges

Issue - State: closed - Opened by GrimmSnark almost 3 years ago - 1 comment

#482 - Mismatch of channel numbers 374 vs 384

Issue - State: open - Opened by YangfanPeng almost 3 years ago

#481 - Calculate and save projections onto cluster means

Issue - State: open - Opened by lshaheen almost 3 years ago

#480 - Could not create TemplateFeatureView

Issue - State: open - Opened by TOMORI233 almost 3 years ago - 1 comment

#479 - long recording file with chemogenetic inhibition

Issue - State: open - Opened by smartbenjamin almost 3 years ago - 3 comments

#478 - Extracting the channel in which spike amplitude is the largest

Issue - State: open - Opened by yasminya almost 3 years ago - 1 comment

#476 - Test dataset?

Issue - State: closed - Opened by cafalchio almost 3 years ago - 2 comments

#473 - Threshold for spike amplitude and truncated distribution

Issue - State: open - Opened by cpiette95 almost 3 years ago - 1 comment

#472 - A lot of clusters labeled with mua

Issue - State: open - Opened by u963593d almost 3 years ago - 2 comments

#471 - gpuarray/subasgn error from drift outlier?

Issue - State: open - Opened by FelixAntonSchneider about 3 years ago - 1 comment

GitHub / MouseLand/Kilosort issues and pull requests