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56 results • Page
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how to calculate TM-score to p-value?
tmscore
pdb
protein
structure
updated 15 hours ago by
kvcsnandi
• 0 • written 16 days ago by
Xylanaser
▴ 80
3
votes
7
replies
562
views
Identifying transcription factors for a list of genes
transcription-factor
updated 12 hours ago by
Ram
40k • written 28 days ago by
lbombini
• 0
2
votes
12
replies
1.5k
views
RepeatMasker error when trying to generate repeat sequence distribution pie chart (all code and errors provided)
repeatmasker
13 hours ago by
epianalysis
• 0
1
vote
2
replies
719
views
Job:
Scientist Position, Data Science AI/ML for Biology (JRD DS)
Data-Science
JNJ
Janssen
updated 12 hours ago by
Ram
40k • written 13 months ago by
Shicheng Guo
★ 9.3k
0
votes
2
replies
906
views
STAR-FUSION error
STAR-FUSION
CTAT
updated 12 hours ago by
Ram
40k • written 14 months ago by
mc123
• 0
3
votes
6
replies
11k
views
Retrieving data from NCBI GEO and RNA-Seq Data Analysis
RNA-Seq
R
GEO
Normalization
Count
updated 5 hours ago by
Karma
▴ 310 • written 6.1 years ago by
hkarakurt
▴ 170
56 results • Page
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Recent Votes
Comment: Calculation of TMB on gene level
Recommended way to normalize SmartSeq2 gene expression matrix to better match 10X expression data
Answer: Filter transcription factors
Comment: Quantification after transcriptome assembly with Trinity
Snakemake: output folder a as dependency to a different rule
A: Snakemake: output folder a as dependency to a different rule
A: In Seurat, How Do nCount_RNA Differ from nFeature_RNA?
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Recent Replies
Comment: bcftools error merging two VCFs: REF prefixes differ
by
iraun
6.1k
I can't find information with respect to the reference genome used to call the variants in `VCF_d`, but in `VCF_p` it seems they used GRCh3…
Comment: Calculation of TMB on gene level
by
smrutimayipanda
▴ 20
I am asking about TMB calculation on gene level, especially TCGA data
Comment: Calculation of TMB on gene level
by
smrutimayipanda
▴ 20
can you please tell me why it is technically incorrect?
Answer: Gene enrichment analysis of prokaryotes gene
by
dthorbur
▴ 550
[Here](https://github.com/golden75/prokaryote_RNASeq) is a tutorial on how to use the R package DESeq2 for prokaryotic RNAseq analyses. [H…
Comment: Read block operation failed with BAM file
by
John Marshall
3.0k
Indeed, though it is a seek issue when accessing files **over HTTP and other network protocols**. So, unless there's something you didn't m…
Comment: geom_signif() uses t-test to compare between more than 3 groups... Isn't this wr
by
RM123
▴ 10
Thank you for your help. I am comparing 4 groups, but as I have gene expression data I have a considerable number of boxplots to make. I fo…
Comment: gene correlations in between two groups
by
ATpoint
76k
And how should I know this? I cannot read minds, nor see your screen, data or anything. Please ask a good question with necessary details. …
Comment: gene correlations in between two groups
by
edus_bioinfo
▴ 40
Thanks. But they are already analyzed. Afaik it analyzes raw data. In my dataset for each gene there is score. I want to interpret the data…
Answer: GWAS phenotype
by
dthorbur
▴ 550
Hello again. Yes, you can conduct GWAS using binary trait data, but it comes with a whole suite of complications. See [this](https://ww…
Comment: geom_signif() uses t-test to compare between more than 3 groups... Isn't this wr
by
RM123
▴ 10
Hello Dariober, That seems like a good solution, however I'm pretty new to R. Could you tell me how I can do that?
Comment: how to create a loop in R
by
Nicolas Rosewick
10k
Not really a bioinformatics related question. Start by looking at R tutorial, there is plenty of them online e.g. : https://www.statmethods…
Comment: Violin plot (Monocle 3) - Troubleshooting
by
fracarb8
★ 1.2k
You did not add the screenshot.
Answer: BED files
by
Alex Reynolds
35k
Generically via `bedmap`: ``` bedmap --echo --echo-map --count exome.bed annotations.bed > answer.bed ``` The `annotations.bed` fil…
Comment: geom_signif() uses t-test to compare between more than 3 groups... Isn't this wr
by
dariober
14k
It seems to me that anova followed by HSD is a more sensible approach than applying independent t-tests. Granted this is the first time I s…
Comment: BED files
by
barslmn
★ 1.8k
I am guessing you want the annotation files. https://ftp.ncbi.nlm.nih.gov/refseq/H_sapiens/annotation/GRCh38_latest/refseq_identifiers/
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