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19 results • Page 1 of 1
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4
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6
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3.8k
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How to interpret DEXseq results in therms of significance
DEXseq RNA-Seq exon
updated 2 hours ago by ▴ 30 • written 6.7 years ago by ★ 1.2k
1
vote
0
replies
139
views
.lgen file has 3+ different alleles
PLINK lgen ped
updated 8 hours ago by 11k • written 2 days ago by ▴ 10
1
vote
3
replies
262
views
TaxID mapping file
annotation blobtools RNAseq decontamination transcriptomes
23 hours ago by Lada ▴ 30
0
votes
0
replies
46
views
Help with VG Toolkit: VCF Output is Empty
vg
updated 7 hours ago by 161k • written 7 hours ago by • 0
0
votes
1
reply
225
views
creating batch colum for batch correction
batch-correction combat
6 hours ago by Expert ▴ 10
0
votes
0
replies
43
views
Error while loading model of Spatial data deconvolution using cell2location
Python cell2location
updated 4 hours ago by 43k • written 4 hours ago by ▴ 50
0
votes
0
replies
34
views
Normalizing AMR gene count data
abundance RGI
updated 4 hours ago by 43k • written 4 hours ago by ▴ 100
0
votes
0
replies
88
views
Gene ontology and homologs
gene-ontology
updated 4 hours ago by 43k • written 21 hours ago by • 0
0
votes
2
replies
165
views
Gene Specific coverage from WGS data
linux WGS Bioinformatics SARS CoV2
updated 4 hours ago by 142k • written 6 days ago by • 0
0
votes
0
replies
39
views
16S rRNA microbiome differential abundance analysis with DESeq2 finds same microbial Genus in both groups.
microbiome 16S DESeq2
3 hours ago by Antonio • 0
0
votes
0
replies
28
views
vdjtools
vdjtools
2 hours ago by yueli7 ▴ 250
0
votes
0
replies
14
views
how to downlad slices of CRAM fro ICGC ARGO
icgc samtools cram
1 hour ago by Javier • 0
0
votes
3
replies
226
views
Question regarding WGCNA
WGCNA Network-construction
updated 1 hour ago by 43k • written 2 days ago by • 0
0
votes
0
replies
17
views
What is the proper way to identify the cell types of scRNAseq cluster?
scRNAseq
1 hour ago by MAPK2 ▴ 40
0
votes
0
replies
19
views
Cox Model with interaction item interpretation
Cox
1 hour ago by Bine ▴ 60
0
votes
0
replies
78
views
Mitogenomes gap closure and making circular genome
gapclosure Mitogenomes validation circulargenome
23 hours ago by KHURRAM SHAHZAD • 0
0
votes
2
replies
222
views
Spike-in control found in raw reads (16S amplicon seq) but not picked up by DADA2 - where to go from here?
nf-core 16S amplicon dada2 ampliseq
58 minutes ago by sovrappensiero ▴ 90
0
votes
1
reply
174
views
Help with DGEList function
DGEList R
updated 18 hours ago by ▴ 90 • written 2 days ago by • 0
0
votes
0
replies
63
views
How to implement an IGV to streamlit app?
python streamlit igv
8 hours ago by avigail.shnaider • 0
19 results • Page 1 of 1
Recent Votes
Comment: High Malat-1 expression in single cell data
A: Meme-Tools: Bit score
Meme-Tools: Bit score
Meme-Tools: Bit score
Comment: error in R code
DEXSeq multiple time points
How to find the most frequent alternative-splicing event from DEXSEQ data?
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Recent Replies
Answer: error in R code by Matthias Zepper 4.6k
I quickly googled [the source code of that function][1], and the error is triggered by this condition: if(length(wn) < 1 || !is.whol…
Comment: Clarification regarding SAM flags "mate reverse strand" (flag 16/0x10) and "read by kalavattam ▴ 190
Thanks for the explanation. I noticed and corrected a typo in which "*read* reverse strand" initially read as "*mate* reverse strand" in t…
Comment: Spike-in control found in raw reads (16S amplicon seq) but not picked up by DADA by sovrappensiero ▴ 90
It's a commercial product, a *Staphylococcus hominis* genome. This species is not found in the DADA2 results, so I guess DADA2 is not ident…
Comment: Question regarding WGCNA by Ram 43k
Plots are incomplete without legends. Please share the complete plot with mappings for shape and color.
Comment: Quetion regarding WGCNA by deepak • 0
Thank you for your reply andres.firrincieli. I have attached the PCA plot of the expression data used in the WGCNA. ![enter imag…
Comment: Design matrix Differential expression analysis by SHN ▴ 40
Got it, thank you for your response. SN
Comment: How to interpret DEXseq results in therms of significance by Sara ▴ 30
Hi, I used write.table(as.data.frame(DEXSeqResults(MyObj)), "Results.tsv", quote=FALSE, sep="\t", dec=".") to save the result but I recei…
Comment: Tissue-specific DEG analysis with DEseq2 by M. ▴ 30
Can I ask what do you exactly mean by same experiment? If you are talking about the same donor and the same procedure, unfortunately, not a…
Comment: install package: package ‘gmwm’ is not available for this version of R by Ram 43k
Find someone with computer skills near you and consult them. From your posts on the forum, it's clear that you need help at a level that we…
Comment: Gene Specific coverage from WGS data by GenoMax 142k
This is not going to work no matter what program you use since the chromosome identifiers in your GTF (`MN908947.3 `) do not match your BA…
Comment: install.packages("imudata") - package ‘imudata’ is not available for this versio by Ram 43k
Read the answers in the post, understand them and try to implement them.
Comment: High Malat-1 expression in single cell data by t.montserrat.ayuso ▴ 10
Just using the normalized expression of Malat1 works.
Comment: Can I merge Hi-C fastq files from different lanes? by Winter • 0
Awesome, thank you for the concise and straight-forward answer!
Comment: error in R code by ATpoint 82k
Look, before you keep posting these sorts of questions and might gross of users, please read and follow https://www.biostars.org/p/357878/ …
Comment: Gene Specific coverage from WGS data by 1769mkc ★ 1.2k
"Also if is there any other quick way to find gene specific coverage" can you give some example so that its bit more clear what do you mean…
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