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23 results • Page
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5
votes
6
replies
1.7k
views
agilent human all exon sureselct v7 bed file
exon
human
bed
v7
agilent
all
sureselect
updated 5 hours ago by
MiladAD
▴ 10 • written 24 months ago by
soheil
• 0
3
votes
0
replies
1.1k
views
Tool:
Sars-Cov-2 Genome & ACE 2 Exploration
sequence
alignment
SNP
genome
11 hours ago by
Ibrahim Tanyalcin
★ 1.2k
1
vote
2
replies
1.1k
views
News:
The GDC Legacy Archive is retiring soon.
genomic-data-commons
tcga
gdc
14 hours ago by
Zhenyu Zhang
★ 1.2k
2
votes
7
replies
405
views
How to access TCGA samples that were treated with a specific drug?
TCGA
RNA-seq
updated 14 hours ago by
Zhenyu Zhang
★ 1.2k • written 3 days ago by
Qroid
▴ 40
2
votes
3
replies
290
views
Design matrix Differential expression analysis
RNA-seq
Differential-expression
updated 20 hours ago by
Gordon Smyth
★ 7.1k • written 2 days ago by
SHN
▴ 40
0
votes
1
reply
223
views
Job:
Seeking Bioinformatics/Drug Design Opportunities - PhD in Pharmacology with Experience in RNA-seq, CADD & Deep Learning Molecular Generation
search
job
updated 8 hours ago by
GenoMax
142k • written 17 hours ago by
tulip
• 0
1
vote
2
replies
207
views
Downloading full alignments from Pfam
pfam
8 hours ago by
bef1
• 0
1
vote
3
replies
204
views
TaxID mapping file
annotation
blobtools
RNAseq
decontamination
transcriptomes
4 hours ago by
Lada
▴ 30
1
vote
2
replies
204
views
Association study using SNP data
Association
Allele
Parentage
SNP
7 hours ago by
drajangirija
• 0
4
votes
2
replies
184
views
GRCh38.gmap file
gnomix
gmap
23 hours ago by
lorena9132
▴ 10
2
votes
1
reply
133
views
LD-prune variants while maintaining a list of SNPs
snp
vcf
filtering
independent
linkage
7 hours ago by
Jautis
▴ 540
1
vote
2
replies
124
views
install package
package
install
updated 3 hours ago by
Pine
▴ 10 • written 7 hours ago by
snajafy
• 0
0
votes
0
replies
122
views
Tissue-specific DEG analysis with DEseq2
DEseq2
RNA-seq
DEG
R
updated 3 hours ago by
arctic
▴ 40 • written 2 days ago by
M.
▴ 30
0
votes
1
reply
95
views
Help with DGEList function
DGEList
R
updated 10 minutes ago by
marco.barr
▴ 90 • written 1 day ago by
Natali
• 0
0
votes
0
replies
65
views
Problem with Seurat package in PercentageFeatureSet function
cell
single
15 hours ago by
Yoosef
▴ 60
0
votes
0
replies
56
views
Clarification on StringTie's `--merge` parameters
stringtie
stringtie-merge
9 hours ago by
DGTool
• 0
0
votes
0
replies
54
views
Seurat V5 integration
Seurat
samples
integration
combine
11 hours ago by
starswillfade
▴ 10
0
votes
0
replies
47
views
News:
Online course: Bioinformatic analysis of transposable elements
GenomeAssembly
Transcriptomics
TransposableElements
ManualCuration
9 hours ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
44
views
Looking for phytopathogenic, Nitrogen-Fixing, and Growth-Promoting databases for Metagenomic Analysis
Bacteria
Metagenomics
Database
5 hours ago by
Christopher
• 0
0
votes
0
replies
35
views
Mitogenomes gap closure and making circular genome
gapclosure
Mitogenomes
validation
circulargenome
4 hours ago by
KHURRAM SHAHZAD
• 0
0
votes
1
reply
34
views
Error in checkFullRank(modelMatrix) : the model matrix is not full rank, so the model cannot be fit as specified.
DESeq2
1 hour ago by
mropri
▴ 150
0
votes
0
replies
33
views
Forum:
Gene ontology and homologs
geneontology
bioinformatics
gene
3 hours ago by
beshka194
• 0
0
votes
1
reply
8
views
STRING-DB API can't find my protein but I can find it when I go to the STRING-DB website directly
STRING-DB
protein
STRING-DB-API
updated 6 minutes ago by
Pierre Lindenbaum
161k • written 22 minutes ago by
brandon
• 0
23 results • Page
1 of 1
Recent Votes
A: Fold change - a final explanation
Answer: sc/snRNASeq using cell ranger parameters
mitochondria in single nuclear RNAseq
Answer: Association study using SNP data
Comment: agilent human all exon sureselct v7 bed file
Answer: install package
Comment: Overlap File for RACON Genome Polisher
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Commentator
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andres.firrincieli
3.6k
Popular Question
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qudrat.nii
▴ 10
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arctic
▴ 40
Popular Question
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iamsmor
• 0
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carlopecoraro2
★ 2.5k
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Sara
▴ 30
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Assa Yeroslaviz
★ 1.8k
Recent Replies
Answer: STRING-DB API can't find my protein but I can find it when I go to the STRING-DB
by
Pierre Lindenbaum
161k
first get the main ID in stringdb: $ wget -qO - "https://string-db.org/api/tsv-no-header/get_string_ids?identifiers=RPS4Y1&species=960…
Comment: Help with DGEList function
by
marco.barr
▴ 90
Are you sure you've loaded the library properly? Have you checked if edgeR is ticked in the list of installed packages? Double-check it. If…
Comment: Error in checkFullRank(modelMatrix) : the model matrix is not full rank, so t
by
mropri
▴ 150
Hi, I just wanted to update that IEGscore and PCNAscore were linearly dependent (or linear combinations of each other). I tested this using…
Comment: TaxID mapping file
by
Lada
▴ 30
if I understood correctly, I might need fle `prot.accession2taxid.gz` file? According to the [documentation][1] in column 2 is Accession.ve…
Answer: install package
by
Pine
▴ 10
To follow on Mathew's reply, one way might be to try and see if you can download and install the package tarball locally: 1. Get the packag…
Comment: agilent human all exon sureselct v7 bed file
by
MiladAD
▴ 10
God bless you man.
Answer: install package
by
Mathew
▴ 50
Hi, This is what happens when I run some code to diagnose the issue. First, I wanted to see what version of R was required for the package…
Comment: TaxID mapping file
by
Lada
▴ 30
thank you, I'll look at these files/documents. .
Answer: LD-prune variants while maintaining a list of SNPs
by
Jautis
▴ 540
I was given a solution by a colleague -- it seems a little hacky, but worked really well! > one way to get this to work is to use --clu…
Answer: Association study using SNP data
by
drajangirija
• 0
Hi Matthew, Thank you very much for your inputs. I am working with Neogen genotyping data, which includes GC values less than 0.15.
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…
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