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9 results • Page
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18
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geom_bar issue in ggplot2 with xlim()
geom_bar
ggplot2
statistics
R
1 hour ago by
rj.rezwan
• 0
0
votes
0
replies
42
views
scRNA-seq data trained model can be used for predictions on bulk RNA-seq data?
rna-seq
4 hours ago by
Bibi
• 0
0
votes
1
reply
75
views
Add stats to the plot
R
stats
plotting
updated 3 hours ago by
GenoMax
142k • written 6 hours ago by
Ghada
• 0
0
votes
0
replies
53
views
problems in installing rDock
rDock
make
Installation
Error
9 hours ago by
Rodolfo Adrián
• 0
1
vote
1
reply
278
views
Error in CIBERSORTx ($ operator is invalid for atomic vectors)
CIBERSORTx
cibersort
error
RNA-Seq
deconvolution
updated 17 hours ago by
nguyenn6
• 0 • written 12 weeks ago by
star
▴ 10
0
votes
0
replies
83
views
Buzzled by retrieving metadata on bioprojects for an organism using "rentrez" package
R
updated 23 hours ago by
Pierre Lindenbaum
161k • written 23 hours ago by
Mohamed Samir
▴ 20
0
votes
2
replies
165
views
What marks a De-Novo Genome assembly as FAILED?
nanopore
denovo
illumina
assembly
genome
20 minutes ago by
Umer
▴ 50
0
votes
2
replies
299
views
Traveler with Infernal mapping failed
r2dt
updated 17 hours ago by
anton.i.petrov
• 0 • written 3 months ago by
Larissa
• 0
2
votes
9
replies
1.0k
views
HGVS Nomenclature of Multiple Indels found in Cis
Nomenclature
HGVS
1 hour ago by
LauferVA
4.2k
9 results • Page
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plotting trees in R: node labels from nexus tree files
Interpreting the Jackstraw plot of Seurat
A: How is the design in DESeq2 work?
Error in CIBERSORTx ($ operator is invalid for atomic vectors)
Answer: RNAseq coverage vs depth for transcript isoform expression?
constructing pangenome through psvcp
Differential Expression with limma: Contrast and Design Matrix, combinatorial approach valid?
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carlopecoraro2
★ 2.5k
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scideas
▴ 30
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• 0
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Recent Replies
Comment: What marks a De-Novo Genome assembly as FAILED?
by
Umer
▴ 50
Yes. We are sequencing 45 different samples with illumina. 12 of these are also going to be sequenced with Nanopore (for hybrid assembly). …
Comment: HGVS Nomenclature of Multiple Indels found in Cis
by
LauferVA
4.2k
how has this code progressed? is it publically available? would you want to work together?
Comment: Design for complex RNA-Seq experiment using Deseq2
by
Ezequiel
• 0
I completely agree with most points. The PCA shows that the biggest driver of difference is the patients themselves, with PRE and POST time…
Comment: Add stats to the plot
by
marco.barr
▴ 130
Hi, you can add statistical annotations using `ggpubr` function `stat_pvalue_manual `. You need to make sure you calculate the p-values fir…
Answer: seqtk subseq in.fastq list.txt > out.fastq not extracting full sequence from
by
ATpoint
82k
Use everything before the whitespace in list.txt, for example `A00869:294:HCW57DSXY:2:1101:3929:1000` and not `A00869:294:HCW57DSXY:2:1101:…
Answer: CellRanger output more cells than specified using --force-cells? Why?
by
scideas
▴ 30
I actually had this same issue with CellRanger v7- turns out that since you have 2 species in your mapping reference, CellRanger is forcing…
Answer: Checking chromosome builds for genotyping data
by
Muhammad
• 0
Assume you have genotype data in Plink format. (G.bed, G.bim, G.fam) Download some reference panel data in Plink format (R.bed, R.bim, R.f…
Comment: Error in CIBERSORTx ($ operator is invalid for atomic vectors)
by
nguyenn6
• 0
did you ever figure it out? i'm having the same issue.
Comment: Traveler with Infernal mapping failed
by
anton.i.petrov
• 0
Hi Larissa! I am the lead developer of R2DT and I've just noticed this question. Could you please email help@r2dt.bio with your input seque…
Comment: constructing pangenome through psvcp
by
analyst
▴ 50
Fixed the issue by updating nucmer version.
Comment: Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NU
by
GenoMax
142k
Can you create a small test database (`makeblastdb`) from your query file and try to run the search against the same file and see if that w…
Comment: calculating genomic coverage/ base overlap in R
by
1769mkc
★ 1.2k
you can `dput(head(df)` for the both the data frame so that other can test for possible solutions
Comment: Broad and Narrow peaks
by
ATpoint
82k
What is your question? It's unclear.
Comment: Help with Biopython for Beginner
by
Joe
21k
One question before offering more solutions: are you trying to learn Python with this as an example problem, or are you trying to find the …
Answer: RNAseq coverage vs depth for transcript isoform expression?
by
Gordon Smyth
★ 7.2k
See the exploration of isoform estimation precision vs read length and sequencing depth in our paper: https://doi.org/10.1093/nar/gkad1167.…
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