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20 results • Page
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News:
Online course: Bioinformatic analysis of transposable elements
GenomeAssembly
Transcriptomics
TransposableElements
ManualCuration
1 hour ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
23
views
Clarification on StringTie's `--merge` parameters
stringtie
stringtie-merge
1 hour ago by
DGTool
• 0
0
votes
0
replies
29
views
Seurat V5 integration
Seurat
samples
integration
combine
3 hours ago by
starswillfade
▴ 10
0
votes
0
replies
46
views
Problem with Seurat package in PercentageFeatureSet function
cell
single
7 hours ago by
Yoosef
▴ 60
0
votes
1
reply
102
views
Job:
Seeking Bioinformatics/Drug Design Opportunities - PhD in Pharmacology with Experience in RNA-seq, CADD & Deep Learning Molecular Generation
search
job
updated 48 minutes ago by
GenoMax
142k • written 9 hours ago by
tulip
• 0
2
votes
3
replies
266
views
Design matrix Differential expression analysis
RNA-seq
Differential-expression
updated 12 hours ago by
Gordon Smyth
★ 7.1k • written 1 day ago by
SHN
▴ 40
4
votes
2
replies
156
views
GRCh38.gmap file
gnomix
gmap
15 hours ago by
lorena9132
▴ 10
0
votes
1
reply
139
views
Association study using SNP data
Association
Allele
Parentage
SNP
updated 16 hours ago by
Mathew
▴ 30 • written 1 day ago by
drajangirija
• 0
0
votes
0
replies
79
views
LD-prune variants while maintaining a list of SNPs
snp
vcf
filtering
independent
linkage
17 hours ago by
Jautis
▴ 530
2
votes
3
replies
742
views
Issues with Mixture file when using CIBERSORTx
Deconvolution
CIBERSORTx
updated 22 hours ago by
vjanve
• 0 • written 7 months ago by
mateomejias
• 0
0
votes
2
replies
172
views
creating batch colum for batch correction
batch-correction
combat
updated 19 hours ago by
Ram
43k • written 1 day ago by
Expert
▴ 10
0
votes
0
replies
77
views
Help with DGEList function
DGEList
R
updated 19 hours ago by
Ram
43k • written 1 day ago by
Natali
• 0
1
vote
2
replies
1.1k
views
News:
The GDC Legacy Archive is retiring soon.
genomic-data-commons
tcga
gdc
6 hours ago by
Zhenyu Zhang
★ 1.2k
0
votes
1
reply
151
views
visualize GSEA
barplot
RNA-seq
GSEA
enrichment
updated 19 hours ago by
Ram
43k • written 1 day ago by
Rob
▴ 170
2
votes
2
replies
182
views
Analysis of intronic reads included scRNA-seq data
single-cell
updated 19 hours ago by
Ram
43k • written 2 days ago by
carolofharvest
▴ 30
9
votes
9
replies
519
views
High Malat-1 expression in single cell data
single-cell
updated 19 hours ago by
Ram
43k • written 6 days ago by
carolofharvest
▴ 30
1
vote
1
reply
143
views
DSEQ2 analysis
DESEQ2
logfoldchange
updated 19 hours ago by
Ram
43k • written 2 days ago by
adi.gershon1
• 0
2
votes
7
replies
390
views
How to access TCGA samples that were treated with a specific drug?
TCGA
RNA-seq
updated 6 hours ago by
Zhenyu Zhang
★ 1.2k • written 2 days ago by
Qroid
▴ 40
1
vote
2
replies
181
views
Downloading full alignments from Pfam
pfam
19 minutes ago by
bef1
• 0
3
votes
0
replies
1.1k
views
Tool:
Sars-Cov-2 Genome & ACE 2 Exploration
sequence
alignment
SNP
genome
4 hours ago by
Ibrahim Tanyalcin
★ 1.2k
20 results • Page
1 of 1
Recent Votes
Comment: Downloading full alignments from Pfam
Answer: Segmentation error while using a tool
What is the best way to rank genes for GSEA?
What is the best way to rank genes for GSEA?
Comment: Raw counts using stringtie
Comment: Raw counts using stringtie
Answer: GRCh38.gmap file
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Popular Question
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iamsmor
• 0
Popular Question
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carlopecoraro2
★ 2.5k
Popular Question
to
Sara
▴ 30
Popular Question
to
Assa Yeroslaviz
★ 1.8k
Popular Question
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Yoosef
▴ 60
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Zhenyu Zhang
★ 1.2k
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psm
▴ 130
Recent Replies
Comment: Downloading full alignments from Pfam
by
bef1
• 0
I tried contacting Pfam, they replied that indeed there is an issue on their side with the full alignments, which should be repaired in the…
Comment: Seeking Bioinformatics/Drug Design Opportunities - PhD in Pharmacology with Expe
by
Mensur Dlakic
★ 27k
Don't know about others, but I would never contact someone about potential employment based only on their interests and with zero knowledge…
Comment: The GDC Legacy Archive is retiring soon.
by
Zhenyu Zhang
★ 1.2k
If you are talking about methylation idat files, they were all migrated from legacy to the data portal. If you are talking about other pl…
Comment: How to access TCGA samples that were treated with a specific drug?
by
Zhenyu Zhang
★ 1.2k
These TCGA samples were taken 10 ~ 20 years ago, and there is no way they have been treated by the modern immunotherapy. Are you sure tha…
Comment: Design matrix Differential expression analysis
by
Gordon Smyth
★ 7.1k
> When is it recommended to use the design <- cbind(Intercept=1,Group=c(-1,-1,-1,1,1,1)) It is not recommended. No such code appears anywh…
Comment: GRCh38.gmap file
by
lorena9132
▴ 10
Hi Mathew, The .txt files provided in the link differ from the .gmap files, but after several attempts, I succeeded in generating the .gma…
Answer: GRCh38.gmap file
by
Mathew
▴ 30
Hi, I have spent some time searching for a GRCH38 map file for you. I have found a certain publication that uses a hg38 genetic map file…
Answer: Association study using SNP data
by
Mathew
▴ 30
Hi, You asked three questions so I will attempt to help the best I can **What should be the optimal GC score cutoff** It sounds li…
Comment: Design matrix Differential expression analysis
by
SHN
▴ 40
Thank you for your explanation. I am working on the cell lines and I am investigating the effect of the treatment on the expression level, …
Answer: Issues with Mixture file when using CIBERSORTx
by
vjanve
• 0
I ran into same issue of "duplicated gene symbol(s)": 1: In CIBERSORTxFractions(sigmatrix = sigmatrix, mixture = mixture, : 22292 dup…
Comment: creating batch colum for batch correction
by
Expert
▴ 10
Thank you for your response. These samples were collected from the same patient at different time points(day 0, 8 and 18) and these are ind…
Comment: creating batch colum for batch correction
by
ATpoint
82k
Not sure I follow. Can you first of all describe which comparisons you want to make, pretending there was no batch effect at all. Write dow…
Comment: Pindel Segmentation Fault Error
by
Ruqaiya
• 0
This the tool still problematic?
Comment: Segmentation error while using a tool
by
Ruqaiya
• 0
Thank you for the advice, i'll keep that in mind.
Comment: Segmentation error while using a tool
by
Ruqaiya
• 0
I am trying to reproduce some bioinformatics data from a research paper-[this paper][1] as i was asked to work on an MRSA bioinfo project, …
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