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## Summary
Thus far, I have always been a little confused to the units of our `DNAedge` objects. Having started to review code I implemented over the summer, I have found a few errors, although th…
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#### Current behavior:
29 genes are discovered to be uncorrelated with their corresponding reactions in `Pyrimidine metabolism`.
| Gene | UniProtID | Reaction | GPR| Correlation| Manually …
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Hello,
Thanks for creating this tool! I've used it previously with RNA002 sequences, and the m6A output data used to reach the 3' end of my reads, however, with the RNA004 data, it now stops about …
esh97 updated
3 months ago
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I am not sure to understand the meaning of this statement in the IBIS technical details.
>**3 Baseline Solutions**
>
>During the Leaderboard stage, the baseline for evaluating PWMs and AAAs …
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Are k-mers with ambiguous nucleotides (e.g. N) included in the sketch or are they thrown out?
I would imagine the best strategy is to have Mash filter these kmers out. I suppose it could be handle…
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Staphilococcus pyogenes Cas9 has an NGG PAM, but Staphilococcus aureus Cas9 has an NNGRRT PAM. While N means any nucleotide, R means A or G. We should support this notation so users can input a human-…
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Kind of a strange question, but is there a suggested workflow for converting the aligned sequence from a modbam to ACGT + mods (eg, m for 5mC, h for 5hmC)? I was thinking of two methods: extracting th…
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Hi,
Thanks for publishing pufferfish! I was interested in trying it for genome alignment, but when I tried to index GRCh38 it printed out a lot of warnings as if it was interpreting it as a transcr…
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Hi,
the image shows the problem (white borders)
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The 10x Genomics Chromium linked reads have a barcode in the first 16 nucleotides of the first read, followed by 7 nucleotides that are no good, followed by 128 nucleotides of template. The second rea…