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SCITE does not validate matrix shape and fails silently

2

First of all, thank you scite authors for making scite available open source to the scientific community. This is a useful tool, and I hope I can help make it...

winni2k

Dear author, I tried to use your software to process single cell genomics data, and confused about how to get the recovered matrix from the noised input, and when I...

cmzuo11

Hi, Thanks for this excellent tool and paper. I was reading through the SCITE source code to understand the `Swap subtrees` section of the `Supplemental Material` section of the SCITE...

winni2k

Add mutations to edges in transpose mode

1

Hello, I am using the `-transpose` mode which states: > This changes the tree representation from mutation tree to rooted binary leaf-labelled tree, where the samples are the leaf labels...

bremsen

Understanding the *.samples file

1

Hi, I'm running SCITE using the -p option but I'm having difficulties understanding the actual output. So, the first line of the *.samples file looks like this: `-13.4636 41 0.000936101...

jmfa

solo7773

Hi, I have a basic question. How can I infer the false positive and false negative rate from the data directly? Thank you! Kevin

kevin199011

Cell Names

2

Is there a way to give SCITE cell names / labels instead the generated s0 , s1 .. ? Many Thanks

marmarmoussa

Stdout is empty

3

Hi, I am working off a SGE cluster and am trying to use SCITE but my stdout and stderr files are empty even though when I use scite from the...

tobsecret

Segmentation fault: 11

1

I was just trying to test SCITE on an extremely sparse genotype matrix, but it fails with "Segmentation fault: 11". A copy of my test data may be found here...

tantrev