James Eapen

There is support for running python in Rmarkdown documents if you have the reticulate package installed.

@rafaeluriarte This solution is based on the one in #1515. In `muttrc`: ``` macro compose a ":source ~/.config/mutt/scripts/fzfattach|" ``` `fzfattach` ```bash #!/usr/bin/env bash fzf_command='fzf' fd_command="fd . ~ --type f" attachment="$($fd_command...

I have this issue as well - on Ubuntu. The font is set with `set guifont` and works for a local window, but doesn't when `--remote-tcp` is set. The font...

I had initially tried cells as columns, but only got one cell in the output with the default filter thresholds: `clusters.csv`: ``` cell,cluster,path SE6052_SA56912_S1_L001_R1_001.merged_quant,0,0 ``` I tried different threshold combinations,...

``` ==> barcodes.tsv genes.tsv matrix.mtx wc -l barcodes.tsv 333 barcodes.tsv ``` ```sh > wc -l genes.tsv 60329 genes.tsv ```

Yes, with this data it was ```sh too-many-cells make-tree \ --matrix-path input \ --output out ``` Adding this ```sh too-many-cells make-tree \ --filter-thresholds "(250, 1)" \ --matrix-path input \ --output...

> Silly question, what is in the `input` folder? ```sh > ls input barcodes.tsv genes.tsv matrix.mtx ``` > Could you also send the tail of each file? ``` ==> barcodes.tsv...

If its helpful, the data are from a [new scRNA-seq protocol](https://www.biorxiv.org/content/10.1101/2022.03.14.484332v2) and I'm using the data from that paper. I got a SingleCellExperiment object and pulled the count matrix from...

The first comment had cells as rows and genes as columns and produced that error about mismatched dimensions (`incompatible matrix sizes((333,60329),(88,1))`). I did not create the matrix correctly as too-many-cells...

The only difference I found between the workshop data and mine is the numeric type - real vs integer: mine: ``` %%MatrixMarket matrix coordinate real general 60329 333 2995863 2...