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Comment: GRIDSS: the Genomic Rearrangement IDentification Software Suite
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dario.garvan
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It seems that Alexandrov's [structural variant and copy number signatures][1] estimated by the [SigProfiler software ecosystem][2] aren't c…
Comment: Faster Needleman-Wunsch rapid global alignment of two sequences?
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Then you may want to see if a program like `lastz` ([**LINK**][1]) may be useful.
[1]: https://github.com/lastz/lastz
Comment: Collect dispersed executable files and run them by using bingo.
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What is the purpose of this tool? I have `~/bin` in my $PATH and I soft-link all executables I need to that location so why install a new t…
Comment: Merge clusters in Seurat UMAP
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bk11
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Can you try this?
library(dplyr)
seuratobj@meta.data <- seuratobj@meta.data %>%
mutate(seurat_clusters = recode(seurat_clu…
Comment: Merge clusters in Seurat UMAP
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kilcdincer
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Thank you for the response but it does not change anything.
Comment: Merge clusters in Seurat UMAP
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bk11
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I have not tested but you could try something like below-
seuratobj$seurat_clusters[seuratobj$seurat_clusters==5]=0
seuratobj$seur…
Comment: Faster Needleman-Wunsch rapid global alignment of two sequences?
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I know about it, isn't there a simple C++ static binary?
Comment: Faster Needleman-Wunsch rapid global alignment of two sequences?
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Gabriel R.
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needle is great! but it does not handle sequences of 100k or so.
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Ram
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Please use the formatting bar (especially the `code` option) to present your post better. You can use backticks for inline code (\`text\` b…
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The point is that you need to feed the ambient algorithm a clustering list as input. This way, it checks for genes present in the soup vs g…
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Wait, so the magnitudes of the PCs are in the thousands? That's not normal for RNASeq.
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What do you get if you use `vg stats -a` on the GAM file?
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Hello,
What approach could you recommend for a large genome (3Gb) with about 10k scaffolds?
I'm having problems with RAM when processing t…
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Very good question and analysis. I personally only tried SoupX so can't weigh in on the comparison. This might be not really the issue here…
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Try following the same logic as the guide which adds the labels about halfway through each pie slice value. Check column's name in script b…
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