User: russhh
russhh • 2.6k
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Bioinformatics etc of leukaemia at University of Glasgow
Posts by russhh
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... From the NEWS for gridExtra 2.3:
https://cran.r-project.org/web/packages/gridExtra/news.html
> Misc. cleanup for CRAN release
>
> renamed cbind/rbind functions copied from gtable to cbind_gtable and
> rbind_gtable to avoid issues with generic method (different signature)
> more cons ...
written 12 days ago by
russhh • 2.6k
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... I know it doesn't help with this enquiry, but I've found the `readxl` [package][1] is more portable between platforms
[1]: https://cran.r-project.org/web/packages/readxl/readxl.pdf ...
written 18 days ago by
russhh • 2.6k
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... Totally agree on 5. Find someone in your department or elsewhere who's also trying to learn the same stuff. Learn the bits they know off them, and teach them the bits that you know. Then add more people. ...
written 24 days ago by
russhh • 2.6k
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252
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... Alternatively, you could randomly sample 2 points on a unit sphere in 5d (sim to [here][1]) [and if necessary map these values into the all-positive fraction of that sphere, if that's where you're theoretically working], calculate the cosine distance between those two points. Repeat this loads of ti ...
written 25 days ago by
russhh • 2.6k
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... I don't know about statistical analysis, but you could certainly cluster using distances defined by the [cosine distance][1] between the pairs of vectors (effectively the angle between the vectors; 1 - cosine_similarity). This would mean that `dist(a, b)` `==` `dist(-a, b)` for your vectors (this mi ...
written 25 days ago by
russhh • 2.6k
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2
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293
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... Is it possible that some other aspect of the alignment/quant/diffex workflow has changed in that time? Are you using the same versions of the tools etc ...
written 25 days ago by
russhh • 2.6k
2
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2
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293
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... It should only change the sign of your log-FC differnetial expression calls ...
written 26 days ago by
russhh • 2.6k
0
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2
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700
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2
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... This should be the accepted answer. ...
written 6 weeks ago by
russhh • 2.6k
1
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349
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... Run some experiments:
cutter(c(-5:5, -2.501, -2.5, -2.499, 2.499, 2.5, 2.5001))
Read the helppage for `cut`
? cut ...
written 6 weeks ago by
russhh • 2.6k
1
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0
answers
349
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... Within `mutate`:
cutter <- function(x) cut(x, breaks = c(-Inf, -2.5, 2.5, Inf),
include.lowest = TRUE,
labels = c("DOWN", "NC", "UP"))
file1 %>%
mutate(logFC = LSC - HSC) %>%
mu ...
written 6 weeks ago by
russhh • 2.6k
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