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We noticed recently that doing quantification multiple times (using exact same settings) on the same file using salmon v0.99.0 resulted in some transcripts having different read number values (NumRead…
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The command should run Crispresso and create the outputs of the Crispresso batch file, however it is giving out a numpy error instead. @shayanhoss
**CRISPResso command to reproduce the behavior:**…
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Some distributions have no closed form (or `special`) versions and are not tractable. For some use cases we can use approximation that are easier to work with.
example: moment matching for p-values…
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Hi,
I am using Mesmer to segment cell nuclei of multiplexed immunofluorescence images.
To check if the segmentation works well, is it possible to obtain the segmentation outlines overlaid on the c…
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**Is the bug primarily related to salmon (bulk mode) or alevin (single-cell mode)?**
This is relevant to salmon.
**Describe the bug**
I have been trying to run the salmon quant commando and have ke…
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Hi all.
I'm doing a fairly simple RNA Seq experiment right now, but ran into a problem when trying to quantify reads from the chloroplast (A. thaliana). For the entire analysis, I am using the nf-c…
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Hi,
I was running GLQ-sampled expansion of my data and get very different power spectra when running the following block with pyshtools 4.9.1 and 4.10:
```
projection = np.load(fname)
zero, w = …
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Hi,
I am trying to interpret some impedance spectra using your package.
As a new user, I followed the procedure described in ``Fitting EIS data.ipynb'' and
I have successfully obtained the drt inv…
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I'm opening this issue here because I believe it's more of a pufferfish-related matter, but will use the issue template from your salmon repository.
**Is the bug primarily related to salmon (bulk m…
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### Discussed in https://github.com/COMBINE-lab/alevin-fry/discussions/101
Originally posted by **ljudevitluka** January 31, 2023
Hi all,
I am working on the scRNAseq dataset generated with t…