Jay Stanley

Unable to allocate memory

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Hi, I am trying to open an RData file with pyreadr. I receive a librdata error for memory allocation. The file opens to 23.1gb in R. I have 64gb of...

2d plotting with a 3d coordinate set#

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I would like to plot only two of a graph's dimensions. Oftentimes this is desirable because working in 3D can be hard to wrap one's head around. This would be...

optimization doesn't appear to run currently

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I've forked pygsp and started implementing the tikhonov optimization on my branch, but it appears that 1) The current implementation of `optimization.prox_tv` does not work because 2) `pyunlocbox` does not...

Hi I am running rsync_tm_backup to time machine backup my entire laptop. My laptop is running the latest pop-os and my NAS is running Manjaro ARM. For initial backup I...

Best practices for background gene sets

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I am looking to do some GO analysis on scRNA-seq data. We are validating an algorithm that produces interesting gene sets. What is the best practice for constructing the background...

Hello, We are running sanity in a pipeline that's primarily implemented in python. Our datasets can be quite large. Our performance is really being crippled by Sanity's I/O interface. As...

I'm wondering if the output of `G = graphtools.Graph(X,decay=None)` is working as intended. My impression was that with `decay=None`, a kNN graph would be created. However, inspection of `G.K` reveals...

Good day, This PR began its life to fix the issues with randomized svd discussed in #58. To fix that, I monkey patched in a version of randomized svd using...

Hi, This test seems to fail in a way that is dependent on the sampling of the test dataset. I have been tinkering with this for a little while trying...

Hi, I noticed that master fails `test_landmark.test_landmark_knn_graph` and `test_landmark.test_landmark_knn_pygsp_graph`. The reason these tests fails is due to the shape of the landmark operator. The tests expect the landmark transitions operator...