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Answer: How do I change the title font size in ViolinPlot (Seurat)
Comment: High Malat-1 expression in single cell data
Answer: TFs and Gene databases
Answer: TFs and Gene databases
Answer: TFs and Gene databases
Comment: java out of memory error through beagle for imutation
Analysis of intronic reads included scRNA-seq data
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Recent Replies
Comment: How do I change the title font size in ViolinPlot (Seurat)
by
Assa Yeroslaviz
★ 1.8k
thx for the explanation. I did look at the function and I also read in the help page, that you get a patchwork object, only when using `co…
Comment: Percentage coverage of reference genome by de novo genome
by
Lemonhope
• 0
Thank you, I'll check out Quast!
Answer: How do I change the title font size in ViolinPlot (Seurat)
by
ATpoint
82k
Looking at the source code of the function it seems that they make individual plots with ggplot when `features` is `> 1` and then use patch…
Comment: Percentage coverage of reference genome by de novo genome
by
Lemonhope
• 0
Thank you for the response to answer you question, no, the ddRADseq data (short paired end illumina reads) for all the samples were used …
Comment: Percentage coverage of reference genome by de novo genome
by
Michael
54k
minimap2 can do this too, mummer (nucmer) is more accurate but slightly slower. If you want to do this as part of generating assembly stati…
Comment: TFs and Gene databases
by
ijarne
• 0
Thank you so much @jaredandrews07 it looks like I will be able to get what I intended with these sources !!
Comment: Percentage coverage of reference genome by de novo genome
by
Joe
21k
If you have contigs for assemblies, using read-based approaches like samtools is probably not the way to go. As you're interested in % cov…
Comment: Exploring Diet Effects in Single-Cell RNA Sequencing
by
ATpoint
82k
Has data been generated in the same batch, so same day, in the same 10x runs?
Answer: Comparative Analysis of Algorithms for Implementing the FM-Index: Correctness, C
by
Michael
54k
So I am assuming you have calculated a Burrows-Wheeler transform, then add the FM-index for the first and last column of the BW-matrix. I r…
Comment: STAR aligner error
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M.
▴ 30
I already told them but they couldn't come up with a useful solution :/
Comment: A question about reference genome for creating the consensus sequence
by
ATpoint
82k
You aligned your data, that is your reference genome to compare against. If you want to change reference then realign.
Comment: Applying the metacell2 algorithm using python
by
JACKY
▴ 140
The vignette I followed, although lacking, seems better since it focuses on doing iterative process. I'll keep looking perhaps I'll find so…
Comment: A question about reference genome for creating the consensus sequence
by
me
• 0
Hi, yes, my cram files cover the whole genome, which is actually individual genome information. I wonder how to adjust the base genome. Tha…
Comment: CNVKIT - unable to produce scatter and diagram pdfs
by
DGTool
• 0
At least according to the documentation, it seems for WGS you can use the `batch --method wgs` option. There is more information here: [htt…
Answer: A question about reference genome for creating the consensus sequence
by
ATpoint
82k
It is the consensus for all reads that overlap a given base, it's not a genome consensus unless your reads cover the entire genome.
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