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77 results • Page
2 of 2
Sort: Views
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Views
Votes
Replies
0
votes
0
replies
115
views
qPCR gene expression data analysis
qPCR
geneexpression
anova
2 days ago by
ebertomeup
• 0
0
votes
0
replies
113
views
DOCK6 installation on MacOS M1
installation
troubleshooting
DOCK6
updated 2 days ago by
GenoMax
142k • written 2 days ago by
Rodolfo Adrián
• 0
0
votes
0
replies
112
views
lncRNA
tcga
lncrna
5 days ago by
jain72744
▴ 10
0
votes
0
replies
110
views
Error when running create-maf-vcf at convertGVCFToHVCFForChrom step - PHGv2
PHG
pangenome
PHG_v2
1 day ago by
Jsarria.EEAD
• 0
0
votes
0
replies
110
views
Is it okay to assemble my 12 metatranscriptome samples with Trinity separately?
trinity
metatranscriptome
2 days ago by
jway
• 0
0
votes
0
replies
110
views
Is there a real ground truth for CNV data?
CNV
4 days ago by
jennyp0706
• 0
0
votes
0
replies
108
views
cat-bgen fail
bgenix
updated 1 day ago by
Ram
43k • written 2 days ago by
lambard
• 0
0
votes
0
replies
105
views
Use of ichor CNA
Dog
CNA
genome
1 day ago by
sainavyav22
• 0
0
votes
0
replies
105
views
dbNSFP sift scores integration
SIFT
VEP
dbNSFP
5 days ago by
atariw
▴ 10
0
votes
0
replies
105
views
reference-free assembly error assessment tools
assembly
4 days ago by
lagartija
▴ 160
0
votes
0
replies
104
views
Reference panel of normals for ensembl named refgenome
Mutect2
5 days ago by
gernophil
▴ 80
0
votes
0
replies
100
views
Help interpreting KEGG module definitions for converting to NetworkX graph
definition
kegg
module
database
genomics
1 day ago by
O.rka
▴ 720
0
votes
0
replies
99
views
Why the shape of RCS is contradictory to the p value for nonlinearity.
RCS
ggplot2
ggplot
R
updated 3 days ago by
GenoMax
142k • written 3 days ago by
Dude
• 0
1
vote
0
replies
98
views
Producing sequence for splicing isoforms
isoform
rMATs
splicing
alternative
SplAdder
5 days ago by
tomas4482
▴ 400
0
votes
0
replies
96
views
NEURON, Brian2, NEST, or PyNN
NEST
NEURON
PyNN
Brian2
3 days ago by
brunofelicianodeomena
• 0
0
votes
0
replies
94
views
ReactomeGSA
ReactomeGSA
3 days ago by
Shaimaa Gamal
▴ 10
0
votes
0
replies
94
views
In what situations is 'outer' typically used when using anndata.concat()?
concat
anndata
scanpy
4 days ago by
Spring
• 0
0
votes
0
replies
91
views
genomic region of transcription factor
search
HOMER
motif
22 hours ago by
qudrat.nii
▴ 10
0
votes
0
replies
88
views
Empty kernel in SEACells model
single-cell
scanpy
seacells
python
anndata
5 days ago by
JACKY
▴ 140
0
votes
0
replies
84
views
constructing pangenome through psvcp
psvcp
pangenome
1 day ago by
analyst
▴ 50
0
votes
0
replies
81
views
How do I quantify the non-coding transcripts that I have generated after using CPAT,PLEK, and BLAST altogether?
transcript
Quantify
non-coding
1 day ago by
Varsha
• 0
0
votes
0
replies
79
views
Understanding behaviour of SCTransform in Seurat
Seurat
scRNASeq
normalization
updated 1 day ago by
GenoMax
142k • written 1 day ago by
yura.grabovska
▴ 90
0
votes
0
replies
68
views
Cell type annotation mixed with other type cells
cell
annotation.
updated 17 hours ago by
GenoMax
142k • written 17 hours ago by
Long
• 0
0
votes
0
replies
68
views
sci-RNA-seq
cell
single
seurat
sci-rna-seq
counts
19 hours ago by
kilcdincer
▴ 10
0
votes
0
replies
53
views
How can i use ESM-1v ?
VEP
ESM-1v
12 hours ago by
Meto
• 0
0
votes
1
reply
39
views
Broad and Narrow peaks
ATAC
ChIP
seq
updated 2 hours ago by
ATpoint
82k • written 2 hours ago by
Jacek
▴ 20
0
votes
0
replies
13
views
Tera-scale metagenomic coassembly tool
co-assembly
Metagenomics
1 hour ago by
Moinuddin
• 0
77 results • Page
2 of 2
Recent Votes
Differential Expression with limma: Contrast and Design Matrix, combinatorial approach valid?
Differential Expression with limma: Contrast and Design Matrix, combinatorial approach valid?
Answer: RNAseq coverage vs depth for transcript isoform expression?
Answer: ChatGPT optimized for bioinformatics questions
Comment: ChatGPT optimized for bioinformatics questions
C: How can I perform Differential expression analysis with just one control and one
C: How can I perform Differential expression analysis with just one control and one
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mohammadhassanj
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Recent Replies
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 precision vs read length and sequencing depth in our paper: https://doi.org/10.1093/nar/gkad1167. Table 1 o…
Comment: How to handle duplicated genes in TCGA data?
by
txema.heredia
▴ 130
Why does the tool require gene symbols and not ensembl ids? Is it retrieving information from somewhere else? If so, your best bet is to fi…
Comment: how to treat the replicates while performing WGCNA
by
mavy
▴ 10
Thank you so much for your response . Really appreciate it. I will try the way you mentioned and will get back if I have any query
Comment: Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NU
by
hophuquy0944
• 0
i have the same error, i used high performance computer, here is my code to set memory. srun --nodes=1 --ntasks=1 --cpus-per-task=24 -…
Comment: Overlapping Ranges within Granges object
by
Alex Reynolds
35k
Yes, `bedmap` will perform operations on one or two BED files.
Comment: B allele frequency (BAF)
by
aidangcruickshank
▴ 10
Apologies for resurrecting this post, but any idea what that functions "regions" paramater takes? Would it be a GRanges object? The documen…
Comment: How to handle duplicated genes in TCGA data?
by
Ngrin
• 0
Thanks @txema.heredia.The tool I am going to use only accepts gene symbols. This is the reason. So I cannot use ENS IDs.
Answer: Design for complex RNA-Seq experiment using Deseq2
by
swbarnes2
14k
This is a rather small experiment, I don't know that you can establish a meaningful baseline for each patient with a single pre sample, and…
Comment: GG Sankey plot
by
LauferVA
4.2k
@bk11 i changed this comment to an answer. if you disagree please let me know. thanks for sharing your knowledge. VAL
Comment: ComplexHeatmap - How to change fontsize of rowAnnotation
by
hannes.bongartz
• 0
Thanks for the input. Unfortunately, that didn't help either. I appreciate any other tips. Thank you
Answer: GG Sankey plot
by
bk11
★ 2.5k
You need to change your data table into a 'long' format. You can do something like this- GOs_childs_recursive <- GOs_childs_recursive …
Answer: Trimming tool
by
ntsopoul
▴ 60
I use Trim Galore which automatically recognizes adaptors. https://github.com/FelixKrueger/TrimGalore Here is the script I am using for…
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