This is a test version of Biostars. For the public version, visit https://www.biostars.org.
0 votes
5 replies
1.5K views
install.packages("imudata") - package ‘imudata’ is not available for this version of R
r
updated by Ram Ram • written by snajafy • snajafy
0 votes
3 replies
1.5K views
Error in checkFullRank(modelMatrix) : the model matrix is not full rank, so the model cannot be fit as specified.
deseq2
written by mropri mropri
0 votes
2 replies
1.7K 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
written by brandon • brandon
0 votes
0 replies
537 views
Mitogenomes gap closure and making circular genome
gapclosure mitogenomes validation circulargenome
written by KHURRAM SHAHZAD • KHURRAM SHAHZAD
0 votes
6 replies
6.8K views
install package: package ‘gmwm’ is not available for this version of R
r
updated by Pine • Pine • written by snajafy • snajafy
0 votes
0 replies
585 views
Looking for phytopathogenic, Nitrogen-Fixing, and Growth-Promoting databases for Metagenomic Analysis
bacteria metagenomics database
written by Christopher • Christopher
1 vote
1 reply
1.3K views
LD-prune variants while maintaining a list of SNPs
snp vcf plink filtering independent
updated by zx8754 zx8754 • written by Jautis Jautis
1 vote
2 replies
1.6K views
Association study using SNP data
association allele parentage snp
written by drajangirija • drajangirija
0 votes
0 replies
529 views
News: Online course: Bioinformatic analysis of transposable elements
genomeassembly transcriptomics transposableelements manualcuration
written by Physalia-courses Physalia-courses
0 votes
3 replies
2.1K views
Problem with Seurat package in PercentageFeatureSet function
cell single
updated by bk11 • bk11 • written by Yoosef • Yoosef
0 votes
4 replies
1.9K views
Design matrix Differential expression analysis
rna-seq differential-expression
updated by Gordon Smyth Gordon Smyth • written by SHN • SHN
0 votes
2 replies
1.2K views
GRCh38.gmap file
gnomix gmap
written by lorena9132 • lorena9132
1 vote
3 replies
3.6K views
Issues with Mixture file when using CIBERSORTx
deconvolution cibersortx
updated by vjanve • vjanve • written by mateomejias • mateomejias
0 votes
1 reply
845 views
creating batch colum for batch correction
batch-correction combat
written by Expert • Expert
0 votes
4 replies
1.4K views
Segmentation error while using a tool
smalt
updated by Mensur Dlakic Mensur Dlakic • written by RT • RT
0 votes
1 reply
1.1K views
Help with DGEList function
dgelist r
updated by marco.barr • marco.barr • written by Natali • Natali
0 votes
0 replies
585 views
Homer motif analysis
homer
written by daffodil • daffodil
1 vote
2 replies
2.1K views
News: The GDC Legacy Archive is retiring soon.
genomic-data-commons tcga gdc
written by Zhenyu Zhang Zhenyu Zhang
2 votes
2 replies
3.6K views
Force PLINK2 to neglect chrX as the sex chromosome
plink2
written by 8armed • 8armed
0 votes
5 replies
2.7K views
Easy way to find out which allele is minor allele from bed file?
plink
updated by chrchang523 chrchang523 • written by curious curious
0 votes
1 reply
1.7K views
visualize GSEA
barplot rna-seq gsea enrichment
updated by Ram Ram • written by Rob • Rob
0 votes
2 replies
1.3K views
fastq screen aligner no specified.
bwa bowtie2 fastqscreen
updated by GenoMax GenoMax • written by Ximena • Ximena
0 votes
1 reply
1.2K views
filtering before dada2
bbduk qiime2 dada2 metagenomic
updated by Ram Ram • written by Valentina • Valentina
0 votes
6 replies
1.8K views
Differential Expression Analysis using DESeq2 in R
deseq2 r
updated by swbarnes2 swbarnes2 • written by Erina • Erina
0 votes
4 replies
1.8K views
TaxID mapping file
annotation blobtools rnaseq decontamination transcriptomes
updated by WaspInSpace • WaspInSpace • written by Lada • Lada
1 vote
0 replies
641 views
.lgen file has 3+ different alleles
plink lgen ped
updated by zx8754 zx8754 • written by Emilie • Emilie
0 votes
0 replies
553 views
vcf procesing for ML antigen prediction
formats vcf fastaq hla_imputation hla_typing
written by Javier • Javier
0 votes
2 replies
1.3K views
Extracting mutation status from MAF files - TCGA
tcga maf mutation
updated by Zhenyu Zhang Zhenyu Zhang • written by yahn • yahn
0 votes
0 replies
603 views
IGV interpretation for ATM gene for chromosome 11 for a deceased partient suspected of having melanoma
genetic variant predisposition
written by mikemakaveli1 • mikemakaveli1
0 votes
2 replies
1.1K views
Raw counts using stringtie
stringtie rna-seq
updated by GenoMax GenoMax • written by ahmad.sajad4541 • ahmad.sajad4541
0 votes
0 replies
691 views
Modify plot R mtDNA indel
plot mtdna r
written by marco.barr • marco.barr
0 votes
0 replies
1.0K views
Re-Import modified clusterProfiler's GSEA result from .csv for graphical output-generation (i.e. cnetplot, heatplot)
enrichplot graphical_output gsea clusterprofiler
written by NorbertK • NorbertK
1 vote
2 replies
1.7K views
Analysis of intronic reads included scRNA-seq data
single-cell
updated by Ram Ram • written by carolofharvest • carolofharvest
3 votes
14 replies
5.4K views
High Malat-1 expression in single cell data
single-cell
updated by t.montserrat.ayuso • t.montserrat.ayuso • written by carolofharvest • carolofharvest
0 votes
2 replies
873 views
Downloading older version of a tool
alignment tools
written by RT • RT
0 votes
0 replies
782 views
Generating illumina interops SAV like plots for multiqc reports on HPC
visualization illumina ngs sequencing
written by rustykb • rustykb
0 votes
1 reply
677 views
DSEQ2 analysis
deseq2 logfoldchange
updated by Ram Ram • written by adi.gershon1 • adi.gershon1
0 votes
5 replies
3.5K views
Generating mpileup file using samtools
mpileup samtools
updated by Joe Joe • written by RT • RT
1 vote
5 replies
8.6K views
What purposes can TPM values be used for?
rna-seq tpm normalization deseq2
updated by b.contreras.moreira • b.contreras.moreira • written by JH • JH
0 votes
3 replies
1.2K views
Does comparing two different groups to a common third group introduce bias in the analysis?
deseq rnaseq
updated by ATpoint ATpoint • written by Qi • Qi
0 votes
0 replies
928 views
News: Cellosaurus release 49 is available
cell biocuration line database news knowledgebase
written by Amos Bairoch • Amos Bairoch
0 votes
3 replies
1.6K views
Help with choosing a model species for Augustus for a de novo assembled genome.
augustus annotation assembly genome
updated by dthorbur dthorbur • written by Vijith • Vijith
0 votes
0 replies
643 views
SIngle cell analysis
seurat scrna-seq harmony doubletfinder merge
written by JY • JY
0 votes
2 replies
1.7K views
homer not configured properly
homer maketagdirectory
updated by clairechung112 • clairechung112 • written by amahdi779 • amahdi779
0 votes
3 replies
2.0K views
Bedtools merge minimum overlap?
bedtools genomics
updated by Alex Reynolds Alex Reynolds • written by SJP • SJP
0 votes
0 replies
792 views
Empty table plot using plotGseaTable()
fgsea
written by Chris • Chris
1 vote
1 reply
1.9K views
VG : No reference-sense paths available in the graph; falling back to generic paths.
vg
updated by anovak anovak • written by Hang • Hang
0 votes
3 replies
1.7K views
DiffBind: no peaks in DBA
macs2 diffbind chip-seq
updated by jared.andrews07 jared.andrews07 • written by yvonneh • yvonneh
0 votes
5 replies
2.3K views
Converting CRAM to FastQ
gatk samtools cram samtofastq fastq
written by Maverick • Maverick
1 vote
8 replies
9.1K views
GATK genomicsDBimport intervals for WGS
gatk genomicsdbimport
updated by Sd • Sd • written by Nicolas Rosewick Nicolas Rosewick
Recent Votes
Recent Locations
Recent Replies