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Lines 875-877 of dataman_2019.Rmd generate a 404 not found error after authenticating with Google BigQuery and returning to R as directed by the browser:
```
tcgaCon %>% tbl("Somatic_Mutation") %>…
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OWL has a handful of ["profiles"](https://www.w3.org/TR/owl2-profiles/) that specify subsets of the language. In OBO we tend to use the EL and DL profiles. The DL profile has most OWL features. The EL…
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Hello, I have been working with a sample that has a large heterozygous deletion on chromosome 15, where the other allele is methylated.
However, when performing methylation calling, I found that mos…
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Hi,
I have pulled the latest commit and the same error persists with 03g:
Error in plot.window(...) : need finite 'ylim' values
sorry, I couldn't re-open the original issue
_Originally poste…
ks164 updated
1 month ago
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Hi, I am using modbamtools to view methylation of a region of interest and ran the following command:
```
modbamtools plot \
-r :- \
-b .bed \
-o \
.bam
```
And received t…
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I helped a colleague debug an issue with nanopolish call-methylation, whereby a BAM file with no spliced alignments would be detected as having a spliced alignments, leading to the program stopping. T…
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Hi dear,
firstly thank you for providing Deepsignal. I am wondering how can ı visualize the output of Deepsignal? could you offer any package or guideline in order to visualize the output data? Als…
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Olivia and I (Alyssa) will be working on the synthesis of "the 6" for our Superlab project at Haverford College this fall. We will be following the synthetic scheme outlined in #401, pictured below. …
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Hi Marcin,
I'm ready to starting putting the RTCGA data sets in ExperimentHub. The idea is that we'll create a data package, similar to the usual Experimental Data packages, that will have a little m…
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Hi,
There is a new sample prep that generates read pairs where the CpG
modification needs to be read for both reads in a pair. E.g.
```
ff = forward/forward read pairs
rr = reverse/reverse re…