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0 votes
0 replies
390 views
eRNAs count
erna
updated by Ram Ram • written by Irene • Irene
0 votes
2 replies
2.8K views
Tutorial: Create Oncoprint with ggplot2
oncoplot ggplot2 oncoprint maftools
written by Yun • Yun
5 votes
6 replies
4.5K views
Forum: Science Games For Citizen Science And Educational Purposes
education
updated by Devil911 Gaming • Devil911 Gaming • written by Mary Mary
0 votes
2 replies
952 views
vcf files comparison to find unique variants
vcf
updated by GenoMax GenoMax • written by Nesma • Nesma
0 votes
4 replies
2.2K views
I'm confused: polishing Nanopore consensus sequences (amplicons) with the original reads
polishing amplicons pipeline racon nanopore
written by rDNA • rDNA
1 vote
3 replies
2.2K views
How to filter and keep longest isoform per gene in gff3 file ?
gff isoform maker annotation
written by Sony Nguyen • Sony Nguyen
0 votes
2 replies
1.0K views
Global Alignment tool
python
updated by Joe Joe • written by Khaled • Khaled
0 votes
0 replies
680 views
WGCNA module preservation using only adjacency matrix
wgcna
written by yang1641 • yang1641
0 votes
1 reply
941 views
help with germline analysis using cnvkit
cnvkit
updated by Eric T. Eric T. • written by ww22runner • ww22runner
0 votes
1 reply
1.4K views
CNVKit batch output
cnvkit deletion duplication
updated by Eric T. Eric T. • written by aLex97 • aLex97
0 votes
0 replies
384 views
Interpreting Pathway 7049: Fatty Acid Salvage in PICRUSt2 Results from Nephele
picrust
written by benkosta • benkosta
0 votes
3 replies
1.4K views
I encountered some problem while using bitr() for gene ID transversion.
biomart
written by Pallondyle • Pallondyle
0 votes
0 replies
600 views
Include NCBI taxonomic ID (txid) in the header of downloaded sequences using Biopython
taxonomy sequences biopython ncbi
written by Martín Ezequiel • Martín Ezequiel
0 votes
1 reply
1.1K views
Best Transcriptome file for Salmon after STAR alignment
fasta salmon star rna-seq alignment
updated by biofalconch biofalconch • written by rayanelkholdi • rayanelkholdi
0 votes
0 replies
1.1K views
ClusterProfiler GO / KEGG enrichment analysis for non Model organism
kegg rna-seq enrichemnt
written by Pegasus • Pegasus
0 votes
2 replies
1.1K views
Do I need to regressout uninteresting sources of variation bebofe pseudobul DESeq2 differential expression analysis in single cell data
scrna-seq regression deseq2 pseudobulk
updated by Ram Ram • written by alvaroperona1 • alvaroperona1
0 votes
0 replies
470 views
Performing Differential Analysis with NarrowPeak Files in ATAC-seq: Tumour vs. Control
r differential-analysis narrowpeak atac
updated by Ram Ram • written by Thom • Thom
0 votes
10 replies
4.6K views
Question about CIBERSORTx Docker to Singularity
cibersortx docker singularity
updated by Jose • Jose • written by jinghuang800 • jinghuang800
0 votes
0 replies
528 views
specificity of pathway enrichment
pathway-enrichment gene-ontology
updated by Ram Ram • written by hubsnets • hubsnets
0 votes
0 replies
1.2K views
Changing Cellchat labels or group.by function
cellchat
written by odi • odi
0 votes
3 replies
2.1K views
Deseq2 output and robust PCA (PcaGrid and PcaHubert)
rpca deseq2 rna-seq cpca
updated by Guoyan • Guoyan • written by Emma • Emma
0 votes
0 replies
514 views
Building design matrix for scRNAseq experiment
differential-gene-expression scrnaseq mast
updated by Ram Ram • written by merdanosman • merdanosman
0 votes
1 reply
902 views
conorm warning in python
python rnaseq conorm
updated by Mensur Dlakic Mensur Dlakic • written by Shaimaa Gamal • Shaimaa Gamal
1 vote
5 replies
3.9K views
What is the difference between `possorted_genome_bam.bam` in the output of `cellranger count` and `sample_alignments.bam` in the output of `cellranger multi`?
velocity rna-seq single-cell
updated by Ram Ram • written by Dan • Dan
0 votes
7 replies
2.2K views
How to handle duplicate genes in DoHeatmap() for top DEGs across clusters (seurat single cell)
seurat
updated by Bastien Hervé Bastien Hervé • written by Picasa Picasa
0 votes
3 replies
2.2K views
How to update ncbi-blast+?
blast
updated by GenoMax GenoMax • written by ongchip • ongchip
0 votes
4 replies
1.1K views
Wilcox or T-test with percentages in R
r
updated by michael.ante michael.ante • written by Nona • Nona
0 votes
3 replies
1.5K views
how to run limma for large datasets
r hpc biostatistics statistics
updated by Gordon Smyth Gordon Smyth • written by Bioinfonext Bioinfonext
1 vote
7 replies
1.9K views
[construct a model.matrix ]
regression lm methylation model_matrix
updated by Dunois • Dunois • written by kyj222637 • kyj222637
0 votes
2 replies
1.8K views
Error 137 in Epi2me TB-AMR Workflow
amr ont epi2me pipeline tb
updated by jared.andrews07 jared.andrews07 • written by End • End
0 votes
4 replies
1.6K views
Best way of visualzing RNA-seq bam files
igv
written by ATRX ATRX
0 votes
3 replies
1.1K views
Help with finding scRNA-seq data
10x scanpy python single-cell anndata
updated by ehaag • ehaag • written by AlexStar • AlexStar
0 votes
4 replies
1.8K views
Comparing two RNA-seq runs (each has enough replicates) in DESeq2
deseq2
updated by james.hawley • james.hawley • written by bibrgr • bibrgr
0 votes
9 replies
3.4K views
bcl2fastq
bcl2fastq bcl fastq lane
updated by GenoMax GenoMax • written by kilcdincer • kilcdincer
0 votes
2 replies
1.2K views
How to perform corrected Cell Barcode/UMI calling with an externally sorted BAM?
bam alignment starsolo star
updated by dsull dsull • written by mk mk
0 votes
1 reply
1.1K views
Missing Transcripts in StringTie GTF Output Affecting Downstream Analysis with prepDE.py
prepde.py stringtie
updated by lieven.sterck lieven.sterck • written by upretia • upretia
0 votes
2 replies
1.1K views
Bowtie2 not aligning read...but should?
bowtie2
updated by GenoMax GenoMax • written by theclubstyle • theclubstyle
0 votes
0 replies
608 views
AAI matrix with compareM
aai matrix
written by anna • anna
0 votes
15 replies
8.8K views
ADMIXTURE Segmentatio fault
admixture plink vcf
updated by Mwangana • Mwangana • written by pmc.sa • pmc.sa
0 votes
5 replies
2.8K views
Handling Negative Values in Log-Transformed a Dataset for Differential Expression Analysis with Limma
microarray
updated by Gordon Smyth Gordon Smyth • written by Maryam • Maryam
0 votes
3 replies
1.4K views
Full length 18S rRNA data from Nanopre
linux
updated by 1769mkc 1769mkc • written by Adyasha • Adyasha
1 vote
3 replies
1.8K views
What's going on with Ensembl?
biomart ensembl
updated by Louisse_Ensembl • Louisse_Ensembl • written by yura.grabovska • yura.grabovska
0 votes
4 replies
2.3K views
Error in biomaRt useMart and useDataset accessing ovis aries genome
biomart
updated by Louisse_Ensembl • Louisse_Ensembl • written by Michael • Michael
0 votes
3 replies
1.9K views
PCA Plotting Differences Before and After Batch Correction in RNA-seq for Meta-Analysis
batch rna-seq correction pca
updated by Basti • Basti • written by Nelo • Nelo
0 votes
2 replies
2.0K views
How to install deconstructSigs in R
r
updated by ATpoint ATpoint • written by Zhenyu Zhang Zhenyu Zhang
0 votes
1 reply
1.1K views
Is there a function in cytoscape for calculating node strength ?
network cytoscape igraph
updated by Scooter Scooter • written by SplitInf • SplitInf
0 votes
1 reply
724 views
CRISpick github/downloadable local copy
crispr crisprai crispicj
updated by GenoMax GenoMax • written by noodle noodle
1 vote
0 replies
1.4K views
How to create a signature matrix, using scRNA-seq data, for downstream CIBERSORTx deconvolution of bulk data when the data is too heavy?
cibersortx deconvolution seurat scrna-seq bulkrna-seq
written by Fossil • Fossil
0 votes
0 replies
473 views
Single-Cell RNA Sequencing: Find Tissue with Highest Sox1 Expression
rna-seq
written by Koki • Koki
0 votes
2 replies
1.3K views
Method to detect CNV in a large set of coverage profile ?
bam cnv coverage machine-learning
updated by jared.andrews07 jared.andrews07 • written by Pierre Lindenbaum Pierre Lindenbaum
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