klai001 issues

Results 6 issues of


klai001

QC steps and also an unassigned variable in tutorial code

Hi Xu Ran Many thanks for developing MuSiC! I really like the idea of giving each gene a weight instead of establishing an overall cutoff w signature matrix. I am...

Can we order the top N genes within degplot

Hi Lorena I noticed that DEGplot() orders the top N genes alphabetically. I was wondering if there's an argument I can call upon to order the gene plots of N...

Is there a possibility of excluding self comparisons from upset plot?

Hi, I managed to generate a plot successfully with UpsetR. But one of my samples has relatively high set size in comparison with the rest. Therefore when it is showed...

request for a tutorial using alevin-fry for multiome datasets

Hi, not really an issue, but Im trying to find documented tutorial using alevin-fry for 10x multiome datasets where we also get the spliced and unspliced bam files for the...

trying to understand how this is unsupervised learning/theory behind

Dear all thank you for developing this method! its very useful indeed. I would like to understand more about this method/ i.e. how does this consider as unsupervised learning when...

not understanding max_components arg in reduceDimension() and how it impacts visualisation plot

Hello, I have been trying to understand the reduceDimension() function using the DDRTree method. from this discussion thread https://github.com/cole-trapnell-lab/monocle-release/issues/253 and the source code https://github.com/cole-trapnell-lab/monocle-release/blob/master/R/order_cells.R my understanding is that: firstly, PCA...