analysis:matlab-overview
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| - | ====== Overview of common functions ====== | ||
| - | ===== Utility functions ===== | ||
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| - | ==== Utility functions common to multiple data types ==== | ||
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| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/util/restrict.m | restrict()]]: restricts times in data object (iv, ts, tsd) to specific intervals | ||
| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/util/getd.m | getd()]]: helper function to return data corresponding to label target_field | ||
| - | |||
| - | ==== Utility functions associated with specific data types ==== | ||
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| - | === interval (iv) === | ||
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| - | Basics: | ||
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| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/datatypes/iv/iv.m | iv()]]: constructor | ||
| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/datatypes/iv/CheckIV.m | CheckIV()]]: check integrity of iv struct | ||
| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/datatypes/iv/SelectIV.m | SelectIV()]]: specify intervals to keep | ||
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| - | Simple operations: | ||
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| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/datatypes/iv/ResizeIV.m | ResizeIV()]]: expand or contract intervals by specified amount | ||
| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/datatypes/iv/InvertIV.m | InvertIV()]]: "flips" included intervals to non-included, and vice versa | ||
| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/datatypes/iv/MergeIV.m | MergeIV()]]: merge touching, overlapping, or nearby intervals within an iv struct | ||
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| - | Set operations: | ||
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| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/datatypes/iv/UnionIV.m | UnionIV()]]: set union of iv objects | ||
| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/datatypes/iv/IntersectIV.m | IntersectIV()]]: set intersect, keep only those iv1's that include a piece of iv2 | ||
| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/datatypes/iv/DifferenceIV.m | DifferenceIV()]]: set difference, keep only those iv1's that DO NOT include a piece of iv2 | ||
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| - | Analysis operations: | ||
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| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/datatypes/iv/TSDfromIV.m | TSDtoIV()]]: create interval data from tsd by tresholding | ||
| - | * MultiRaster(): see below | ||
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| - | Visualization: | ||
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| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/datatypes/iv/PlotTSDfromIV.m | PlotTSDfromIV()]]: display intervals defined relative to tsd | ||
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| - | === timestamps (ts) === | ||
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| - | [[https://github.com/vandermeerlab/vandermeerlab/tree/master/code-matlab/shared/datatypes/ts|ts folder on GitHub]] | ||
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| - | Basics: | ||
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| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/datatypes/ts/ts.m|ts()]] constructor | ||
| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/datatypes/ts/CheckTS.m | CheckTS()]]: check integrity of ts struct | ||
| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/datatypes/ts/SelectTS.m | SelectTS()]]: specify ts data to keep. (Also performs reordering) | ||
| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/datatypes/ts/concatenateTS.m | concatenateTS()]]: concatenate two ts objects | ||
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| - | Analysis operations: | ||
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| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/datatypes/ts/getSpikeCount.m | getSpikeCount()]]: returns spike counts (number of spikes) in a nCells x 1 vector of ts input | ||
| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/datatypes/ts/ShuffleTS.m | ShuffleTS()]]: shuffle spikes in ts struct | ||
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| - | Visualization: | ||
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| - | * MultiRaster(): see below | ||
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| - | === timestamped data (tsd) === | ||
| - | |||
| - | [[https://github.com/vandermeerlab/vandermeerlab/tree/master/code-matlab/shared/datatypes/tsd|tsd folder on GitHub]] | ||
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| - | Basics and selection: | ||
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| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/datatypes/tsd/tsd.m | tsd()]]: constructor | ||
| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/datatypes/tsd/CheckTSD.m|CheckTSD()]]: check integrity of tsd struct | ||
| - | * getd(): get (raw) data with specified label | ||
| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/datatypes/tsd/TSD_SelectChannel.m|TSD_SelectChannel()]]: returns tsd containing only channels with labels in channel_label | ||
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| - | Merging: | ||
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| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/datatypes/tsd/MergeTSD.m|MergeTSD()]]: Merge data from multiple TSDs into a single, new TSD | ||
| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/datatypes/tsd/UnionTSD.m|UnionTSD()]]: returns the union (merge) of two TSD inputs | ||
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| - | Analysis: | ||
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| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/datatypes/tsd/TSD_getidx2.m|TSD_getidx2()]]: returns idxs into ts or tsd, delimited by input interval(s) | ||
| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/datatypes/tsd/TSDbyZ.m | TSDbyZ()]]: compute averages of the values in tsd_in binned by z's cfg.edge | ||
| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/datatypes/tsd/TSDbySpace.m |TSDbySpace()]]: construct 2D matrix with spatial averages of the values in tsd_in | ||
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| - | === tuning curve (tc) === | ||
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| - | ==== Low-level utility functions ==== | ||
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| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/util/nearest_idx3.m | nearest_idx3()]]: return the indices of ''lookupvalues'' that are closest to the numbers in ''data'' | ||
| - | * [[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/shared/util/ndhist.m | ndhist()]]: fast N-dimensional histogram (useful for plotting place fields) | ||
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| - | ===== Visualization functions ===== | ||
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| - | * the amazing MultiRaster ([[https://github.com/vandermeerlab/vandermeerlab/blob/master/code-matlab/example_workflows/MultiRaster_usage.m|examples]]) | ||
| - | |||
| - | ===== Loading/converting functions ===== | ||
| - | |||
| - | ===== Analysis functions ===== | ||
analysis/matlab-overview.txt ยท Last modified: 2018/07/07 10:19 (external edit)
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