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1 vote
5 replies
2.5K views
CIBERSORTx error (error in rep(2, size * length(cells) -1)) : invalid 'times' argument
deconvolution rna-seq cibersortx cibersort
updated by zhbyrd • zhbyrd • written by Mr. George • Mr. George
0 votes
2 replies
1.4K views
Differences in DEG results using RSEM with and without the --strandness reverse
rsem deg star transcriptomic
updated by LauferVA LauferVA • written by Emy Alade • Emy Alade
1 vote
5 replies
1.9K views
Absolute vs. differential gene expression - which analysis is more informative?
differential-gene-expression gene-expression rna-seq
updated by LauferVA LauferVA • written by bioinfo1990 • bioinfo1990
0 votes
3 replies
1.8K views
making psam file for plink2
plink2
written by dec986 dec986
0 votes
4 replies
1.2K views
gtf file for canFam2 genome version
gtffile
written by 1769mkc 1769mkc
0 votes
2 replies
1.0K views
Bioinformatics
stringdb
updated by Ram Ram • written by ahmad79rezahay • ahmad79rezahay
0 votes
0 replies
800 views
News: Epigenomics Data Analysis
epigenomics rna-seq atac-seq chip-seq hi-c
written by Physalia-courses Physalia-courses
0 votes
8 replies
1.9K views
does any licenses needed to make experiments?
offtopic
updated by Dunois • Dunois • written by suleyman • suleyman
0 votes
5 replies
1.4K views
Strange overrepresented sequence
fastqc adapter rnaseq
written by georomano • georomano
4 votes
6 replies
8.0K views
Add metadata based on tree structure
r ggtree
updated by rsieber • rsieber • written by Jack • Jack
0 votes
3 replies
819 views
Normalize RNAseq data on RT-dPCR or RT-qPCR
rnaseq
updated by ATpoint ATpoint • written by lagartija lagartija
0 votes
2 replies
1.0K views
Is there a way to import a large amount of regions of interest into IGV
sequencing igv genomics ngs
updated by GenoMax GenoMax • written by Mark • Mark
0 votes
10 replies
2.2K views
Question about an alignment
ces sequencing alignment
written by barslmn • barslmn
0 votes
2 replies
881 views
Arioc (read mapping) ref sequence length error
mapping gpu arioc read
written by Michael • Michael
0 votes
0 replies
727 views
When I want to compare two groups at multiple time points in scRNA-seq datasets, the criteria for the genes to be analyzed
seurat scrna-seq
written by Apprentice Apprentice
0 votes
6 replies
2.1K views
Heatmap problem in R
r heatmap
written by ParastooA • ParastooA
0 votes
4 replies
1.4K views
Bacterial VCF file annotation using snpEff error
snpeff
written by 1769mkc 1769mkc
0 votes
4 replies
2.4K views
Coverage depth using samtools
samtools ngs depth sequencing coverage
written by slzr_ • slzr_
0 votes
4 replies
1.4K views
MarkDuplicates RNASeq: A few samples look weird. What could be the cause?
qc markduplicates picard rnaseq
updated by GenoMax GenoMax • written by Davor • Davor
0 votes
2 replies
930 views
Data Integrity (NCBI SRA and TCGA)
clinic metadata
updated by Zhenyu Zhang Zhenyu Zhang • written by umarfaruksahin • umarfaruksahin
0 votes
0 replies
1.9K views
concatenating 2 differently-imputed VCF files then filtering by imputation score to keep the higher imputation score imputed vaiant from duplicate variants
imputation filtration score duplicate variants
written by SalmaElShafie • SalmaElShafie
0 votes
0 replies
531 views
loss of coverage using gargammel
gargammel.pl art adapterremoval
written by anna.utili • anna.utili
0 votes
2 replies
900 views
What is the stance on optical duplicates in RNASeq?
duplicates rnaseq optical-duplicates
written by Davor • Davor
2 votes
6 replies
2.6K views
How to rank genes for GSEA using edgeR-LRT results ?
deg edger
updated by Gordon Smyth Gordon Smyth • written by Picasa Picasa
0 votes
3 replies
1.7K views
Using bulk RNA-seq DE results to perform PCA in single cell RNA-seq
single-cell scrnaseq
updated by jared.andrews07 jared.andrews07 • written by Oli • Oli
2 votes
1 reply
786 views
Access to dbSnp137 (GRCh37)
dbsnp137 grch38 dbsnp
updated by Marcellie87 • Marcellie87 • written by Steven • Steven
0 votes
0 replies
632 views
How to convert RAP-DB/MSU IDS to RefSeq/Entrez Gene IDS?
irgsp entrez rap-db refseq
written by ChanderKant (CK) Chaudhary • ChanderKant (CK) Chaudhary
0 votes
4 replies
4.4K views
Annotating single cell data automatically
single-cell
updated by S.Ghazala • S.Ghazala • written by Gerard • Gerard
4 votes
0 replies
772 views
News: Join the online/distributed nf-core Hackathon next week!
nf-core nextflow container workflows bioinformatics
written by Matthias Zepper Matthias Zepper
0 votes
3 replies
1.2K views
Non variants sites of the genome (gVCF file)
non genome variants sites gvcf
updated by LauferVA LauferVA • written by heureuse • heureuse
0 votes
1 reply
775 views
Choosing the "right" sequence as an input control
input control chipseq
updated by ATpoint ATpoint • written by mark.pekarsky • mark.pekarsky
0 votes
2 replies
2.2K views
Unable to parse config file
nextflow nf-core pulled form github
updated by Phil Ewels Phil Ewels • written by JieQY • JieQY
0 votes
1 reply
865 views
Seeking Guidance on Selecting Control ChIP Sequences for nf-core/chipseq Pipeline
srr nf-core chipseq
updated by mark.ziemann mark.ziemann • written by mark.pekarsky • mark.pekarsky
0 votes
0 replies
669 views
Problem with GSVA output
gsva rnaseq
written by a.stef.44 • a.stef.44
0 votes
2 replies
1.8K views
Using UMI-tools on Smart-seq3 RNA-Seq data
rna-seq umi umi-tools smart-seq3
updated by Ram Ram • written by Agastya • Agastya
0 votes
5 replies
1.4K views
Remove site with only missing data
fasta
updated by Pierre Lindenbaum Pierre Lindenbaum • written by Leane • Leane
0 votes
3 replies
1.5K views
Problems with Seaborn plots in Python
python sns plot
updated by Wayne Wayne • written by egascon • egascon
0 votes
4 replies
1.7K views
Downloading full list of Homo sapiens genes
genes
written by Nigussie • Nigussie
0 votes
1 reply
754 views
How to normalise Nanopore mRNA sequencing data between two cell lines
nanopore rnaseq normalization
updated by lagartija lagartija • written by Mo • Mo
2 votes
5 replies
5.5K views
Python library for parsing bcftools stats file
bcftools
updated by Pierre Lindenbaum Pierre Lindenbaum • written by William William
0 votes
0 replies
552 views
Manta SV (specially Translocation)
manta structural-variant
updated by Ram Ram • written by Nai • Nai
0 votes
3 replies
1.5K views
Cytoscape COLOUR EDGES
reulatory cytoscape networks
updated by Scooter Scooter • written by SKY • SKY
0 votes
3 replies
2.6K views
How to perform PPI network analysis in STRING for newly sequenced bacterial genome ?
proteomics cytoscape network string
updated by bioinfo_enthusiast • bioinfo_enthusiast • written by Kumar Kumar
0 votes
0 replies
519 views
How to perform burden test using plink /seq
plink-seq burden-test
updated by Ram Ram • written by aiswaryabioinfo • aiswaryabioinfo
0 votes
3 replies
1.3K views
Higher number of reads mapped to transcriptome vs genome in star mapping
riboseq star bam transcriptome alignment
updated by i.sudbery i.sudbery • written by paguirreazorin • paguirreazorin
0 votes
4 replies
1.3K views
Visualisation of read depth
coverage read-depth variant-calling
updated by Ram Ram • written by AIMAR • AIMAR
0 votes
0 replies
595 views
construct PKN
regulatory pkn mouse networks gene
written by rahma.khoualdia • rahma.khoualdia
0 votes
5 replies
2.4K views
Tool for automatic immune cell annotation in MOUSE?
immune single-cell annotation
written by txema.heredia • txema.heredia
1 vote
12 replies
8.7K views
How to draw venn diagram for two CNV lists?
venn
updated by 5heikki 5heikki • written by lyz10302012 lyz10302012
0 votes
1 reply
851 views
TMM normalized CPM
tpm cpm tmm
updated by ATpoint ATpoint • written by maryak • maryak
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