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Hi,
I'm currently looking to use scVAEIT to integrate two different datasets, CITE-seq (containing scRNA-seq and protein abundance) and scMultiome (containing scRNA-seq and scATAC-seq). They have …
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Hi,
I am trying to analyse raw 10X genomics sequence data on it, using the following code on HPC cluster but it is keep giving me an error and it seems it stops
-R1 SC98_R1_001.fastq.gz
-R2 SC98R2_…
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I would like to see instructions for analysing CITE-seq data. For example, my data looks like
```
$ ls *
CITE:
BH_pool1_S1_L001_I1_001.fastq.gz BH_pool1_S1_L002_R1_001.fastq.gz BH_pool1_S1_L00…
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Hi, thanks so much for developing this great tool. I just run a 10x Genomics scRNA sequencing on a pool of hashtag multiplexed sample. I tried to use the cmd below to generate the cell-hashtag count m…
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Hi, I read your recently published paper in which I saw 'To conduct this comprehensive comparison, we utilized preprocessed data from three distinct datasets: the PRJNA551220 dataset, the Perturb-CITE…
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Hello,
I am currently attempting to run CITE-seq-Count on my data, however, it appears to get stuck and not continue at a certain point during the run. Do you have any idea what could cause this?
…
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Hi,
I'm getting a different output each time CITE-seq count is run. My whitelist and parameters do not each each time.
Is this expected? Is there anyway to control this in terms of reproducibi…
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Thoughts on [ROC analysis](https://en.wikipedia.org/wiki/Receiver_operating_characteristic) of protein-DNA tags as classifiers.
The question is how well a given reagent performs as a classifer rel…
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Were any steps taken to filter the background noise from unbound antibody from the CITE-seq data?
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Hi,
I used to be able to use CITE-seq-Count 1.3 just fine, but I have tried to plug in results from a new experiment using python 3.7 and 3.8 and both times I got these errors:
Exception in threa…