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Recent Replies
Comment: High Malat-1 expression in single cell data
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carolofharvest
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Thank you for sharing.
What are your thoughts on the genes Gm42418, AY036118, and Gm26917? Some articles suggest that clusters with an abu…
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> I think I will filter the reads ultimately.
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What is `stringie.sh`? Try `./stringtie.sh -h` and then `more stringtie.sh`.
Comment: Do I need to go back and filter my long-reads?
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> I think you should have the right to delete a question you yourself have submitted
If you were to talk to someone, can you make them for…
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I don't have any experience using `BRAKER2` so I cannot comment, but I would be extra careful about data you find on non-model organisms. T…
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You can copy and paste your code and then use `101010` button in the edit window to format it as text to keep it monospaced.
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I guess this could really depend on the "counting" strategy, the library complexity and possible lane biases.
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Hi dthorbur, thanks for the response. I have run Augustus using Arabidopsis as a species. I would like to know about the suitability of usi…
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Alicia Oshlack has done some cool work on this but even the plots in her papers show that TPMs sometimes overcorrect and the relationship i…
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![The below image contains the code and result also.][1]
[1]: /media/images/96562b96-d508-4f67-96d1-7c71aa17
Comment: High Malat-1 expression in single cell data
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My response above was actually partly inspired off of a reading of your paper :)
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> everything is showing equal in environment section. But when I am checking for equalities, it’s showing False
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You can calculate the percentage of intronic reads for each cell using the [DropletQC][1] package for R.
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I did say almost - obviously things are going to get tricky at gene ends - this is why we have the concept of effective length. Its interst…
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Malat1 correlates with the intronic content and can be used as a nuclear indicator. In this preprint we discuss about this artifact and the…
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