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Job: Structural bioinformatics workshop
Structural bioinformatics
18 minutes ago by reetesh • 0
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News: Structural bioinformatics workshop
Structural bioinformatics
20 minutes ago by reetesh • 0
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Forum: Structural bioinformatics workshop
Structural bioinformatics
23 minutes ago by reetesh • 0
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6
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124
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How to test the similarity of two gene expression profiles
test gene sets
36 minutes ago by htchd7ji • 0
3
votes
3
replies
62
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Which are the different kinds of GeneID that exist?
R RNA-Seq
2 hours ago by pinheirofabiano ▴ 100
0
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0
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26
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Error using DWLS
deconvolution DWLS RNAseq
3 hours ago by Ana • 0
836
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169
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173k
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110 follow
News: The Biostar Handbook. A bioinformatics e-book for beginners.
training handbook
updated 6 months ago by 3.4k • written 8.4 years ago by 102k
0
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0
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34
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WGCNA
problem
updated 3 hours ago by 166k • written 4 hours ago by • 0
0
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5
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1.6k
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How to remove this module selection error?
WGCNA
updated 4 hours ago by • 0 • written 2.3 years ago by • 0
0
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1
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106
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bbsplit : How to configure ambiguous/ambiguous2 parameters in order to consider as unmapped reads, reads mapped on both human/mouse references.
bbsplit nextflow
updated 2 hours ago by 150k • written 4 hours ago by ▴ 590
1
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2
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78
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Limma for DEG aalysis
R DEG limma ANALYSIS
4 hours ago by rahma.khoualdia • 0
0
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0
replies
58
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deletion impact
vcf
updated 5 hours ago by 150k • written 6 hours ago by • 0
0
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1
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63
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Help finding GTEx v8 file
GTEx SHAPEIT2
updated 5 hours ago by 150k • written 6 hours ago by • 0
2
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5
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134
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Idat file processing issue with command line cli
CanineHTS IDAT
2 hours ago by 1769mkc ★ 1.2k
0
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0
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46
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What is the best way to know if a pair of genes is random?
terms genes go
8 hours ago by Ana • 0
0
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0
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45
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is there a way to get --ref paths to prioritize my order with vg call?
call vgcall
10 hours ago by PolenP • 0
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1
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97
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Has anyone tried used simple ML models to identify virulence genes?
genetics R classifier genomics machinelearning
updated 12 hours ago by ★ 29k • written 17 hours ago by • 0
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2
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110
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What does vg autoindex mpmap do?
vg mpmap autoindex
2 hours ago by Ziyue • 0
3
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3
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171
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How to keep the same view for different AlphaFold 3 simulations in ChimeraX?
chimerax alphafold 3
19 hours ago by Picasa ▴ 660
0
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0
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63
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filtering genes before or after the correlation?
co-expression feature selection correlation
21 hours ago by tyasird ▴ 10
0
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16
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516
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Which tools use or rely on the XA tag in SAM/BAM/CRAM files?
cram XA compress
updated 3 hours ago by ▴ 130 • written 2 days ago by • 0
2
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4
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165
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Which additional files are needed for the -taxids option in blast?
decontamination taxids blastn
updated 22 hours ago by 150k • written 23 hours ago by • 0
0
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0
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76
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Job: Assistant, Associate, or Full Project Scientist in Neurobiology
Biology Neuroscience Neurobiology
1 day ago by UCSDBioSci ▴ 30
6
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8
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294
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6 follow
Forum: i dont know if its related to here or not but it can be very interesting discussion.
biotechnology pills pharma biology offtopic
updated 23 hours ago by ★ 2.9k • written 1 day ago by • 0
1
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2
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142
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Is Centering and Scaling Essential for Expression Data as Input for Machine Learning Algorithms?
featureselection microarray preprocessing
1 day ago by Sib ▴ 60
0
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0
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96
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News: Online Course: Machine learning for multi-omics integration (9–11 June)
Machine-Learning Mult-Omics
1 day ago by Physalia-courses ★ 2.6k
0
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2
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144
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Single Nuclei RNA-Sequencing Analysis Without CellRanger
CellRanger single-cell snRNA-seq
40 minutes ago by 16_masques.vole • 0
0
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0
replies
103
views
Demultiplexing samples when barcodes repeat: Any advice?
seurat demultiplex singlecell scRNAseq
1 day ago by tia • 0
1
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1
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200
views
Unable to generate hierarchical and circle plot using CellChat
cellchat scRNAseq Seurat
1 day ago by S • 0
0
votes
8
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431
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Discrepancy between positions on IGV and NCBI's PrimerBLAST
igv primer blast
3 hours ago by Rozita ▴ 40
0
votes
3
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198
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convert Gene ID to Gene Symbol
gene-id
updated 1 day ago by 45k • written 1 day ago by • 0
0
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2
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172
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Steps for meta-analysis
Meta-Analysis differential-expression
updated 1 day ago by 45k • written 2 days ago by • 0
5
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1
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193
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News: The IGB team needs your help! Write a letter of support to keep the Integrated Genome Browser running!
IGB Integrated-Genome-Browser Funding
updated 2 days ago by ★ 2.0k • written 2 days ago by ▴ 900
0
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0
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113
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how pd tag were defined in gaf file
vg
2 days ago by chuanj8848 • 0
4
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2
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199
views
SRA Toolkit - three fastq files - which is which?
scrna sratoolkit
updated 1 day ago by 150k • written 2 days ago by • 0
0
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0
replies
97
views
Using DEXseq on kallisto tsv outputs ?
alignement DEXseq kallisto
2 days ago by Gerard ▴ 10
1
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0
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128
views
Herald: The Biostar Herald for Wednesday, April 09, 2025
herald
2 days ago by Biostar 3.4k
1
vote
2
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170
views
Batch effect
RNAseq Batch-Effect
updated 2 days ago by 45k • written 2 days ago by ▴ 40
6
votes
6
replies
388
views
Methods for directional pathway analysis of DEGs?
Pathway-analysis ORA GSEA Limma
updated 1 day ago by ★ 7.9k • written 4 days ago by ▴ 10
0
votes
0
replies
109
views
GTDB-tk classify_wf
GTDB-tk classification taxonomic
2 days ago by pranjalarun10 • 0
0
votes
1
reply
474
views
Help finding proteases that most likely cleaved a peptide from a full-length protein
R peptides proteasix
updated 2 days ago by ▴ 40 • written 18 months ago by • 0
0
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0
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103
views
protease candidates for my protein of interest
cleaving-site proteases protein
2 days ago by Fatemeh ▴ 40
0
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1
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909
views
ADMIXTOOLS: qp3pop fatal error (probably missing pop)
qp3pop f3test admixtools
updated 2 days ago by • 0 • written 2.8 years ago by • 0
0
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2
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230
views
Annotate GFA with coverage depth
vg
2 days ago by elcortegano ▴ 210
3
votes
4
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789
views
Query coverage high, E-value low, and identity low - Blastp results interpretation and article recommended?
sequence-analysis blastp protein
updated 1 day ago by ★ 29k • written 2 days ago by • 0
0
votes
0
replies
119
views
Need Help Regarding Back-Splicing Junction Coordinates in CIRI2 Output
circRNA CIRI2
updated 2 days ago by 150k • written 2 days ago by • 0
1
vote
1
reply
175
views
Short reads to identify stuctural variants
SV long-read short-read
updated 2 days ago by 102k • written 3 days ago by ▴ 70
0
votes
0
replies
281
views
Best approach for SNP calling in tumor single-cell multiome data (scRNA-seq + scATAC-seq) for CNV analysis
variant SNP single-cell
2 days ago by nilaylale88 • 0
0
votes
0
replies
163
views
News: News:Workshop:Virtual Genome Assembly, April 15-17
virtual-workshop Genome-Assembly UConn
updated 3 days ago by 45k • written 3 days ago by • 0
0
votes
3
replies
245
views
C.reinhardtii single-cell Seurat object - gene names instead of loci
loci Chlamydomonas single-cell
updated 3 days ago by 150k • written 3 days ago by • 0
120,965 results • Page 1 of 2420
Recent Votes
Comment: How to test the similarity of two gene expression profiles
Answer: How to keep the same view for different AlphaFold 3 simulations in ChimeraX?
Answer: SRA Toolkit - three fastq files - which is which?
Answer: SRA Toolkit - three fastq files - which is which?
Answer: Which are the different kinds of GeneID that exist?
Comment: Which are the different kinds of GeneID that exist?
Answer: Which are the different kinds of GeneID that exist?
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Recent Replies
Comment: How to test the similarity of two gene expression profiles by htchd7ji • 0
I want to compare all the genes, not a small subset.
Comment: How to test the similarity of two gene expression profiles by htchd7ji • 0
Yes. I want to see if there's a statistical test for this
Comment: How to test the similarity of two gene expression profiles by htchd7ji • 0
Thanks for your reply. Is there any R package for this type of analysis or searching?
Comment: Single Nuclei RNA-Sequencing Analysis Without CellRanger by 16_masques.vole • 0
Thanks. I am using HiSAT2 as my aligner but I will checkout STARsolo
Comment: How to test the similarity of two gene expression profiles by GenoMax 150k
Qiagen is able to show this type of analysis (inside Ingenuity Pathway Analysis, IPA) where they can compare your list of genes to thousand…
Answer: How to test the similarity of two gene expression profiles by JustinZhang ▴ 130
Sir, your question is kinda vague. Let's say if you know the species of this sample and it happens to be human, then I think you should fin…
Comment: Question about assigning gene names, tximport and DESeq2 by bioinfo ▴ 150
When i create the t2g file to assign the gene names I do this because I use ensembl version 112: mart <- biomaRt::useMart("ensembl", h…
Comment: What does vg autoindex mpmap do? by Ziyue • 0
Thanks for your instruction. I got singal 9 twice. It could be that someone is using memory intensive tasks during my GCSA build. I am usi…
Comment: Which are the different kinds of GeneID that exist? by GenoMax 150k
You can lookup many ID's by putting them in a file (one per line) and using `epost` method like so. $ more names.txt 645520 7…
Comment: Which are the different kinds of GeneID that exist? by pinheirofabiano ▴ 100
thank you very much, @genomax I believe you're right, I'm working with human samples.. I need to convert them to gene symbols..
Answer: Which are the different kinds of GeneID that exist? by GenoMax 150k
Likely those are NCBI/Entrez ID's (which are numerical). You can look them up using [**EntrezDirect**][1]: $ esearch -db gene -query …
Comment: Idat file processing issue with command line cli by 1769mkc ★ 1.2k
yes i can share a pair of the idat files, I have sent to the email address
Comment: bbsplit : How to configure ambiguous/ambiguous2 parameters in order to consider by GenoMax 150k
> From the code of bbsplit : https://github.com/BioInfoTools/BBMap/blob/master/sh/bbsplit.sh This is NOT the official repository of BBToo…
Comment: Which tools use or rely on the XA tag in SAM/BAM/CRAM files? by JustinZhang ▴ 130
If you have to compromise, keeping only the 1st hit in every XA tag is also practicable.
Comment: Which tools use or rely on the XA tag in SAM/BAM/CRAM files? by JustinZhang ▴ 130
I see, it's extremely long and nested, no wonder the file size explodes.
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