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0 votes
0 replies
566 views
activepathways background list problem
integration atacseq rnaseq activepathways
written by biology_inform • biology_inform
0 votes
2 replies
1.4K views
snpEff database build: FATAL ERROR: No CDS checked
gtf snpeff cds
written by rwherman13 • rwherman13
0 votes
1 reply
1.8K views
Using Pseudobulk Approach for Identifying Marker Genes Within a Single Condition
differential-expression single-cell pseudobulk
updated by ATpoint ATpoint • written by nhaus • nhaus
0 votes
2 replies
1.3K views
conda R environment warnings - error
r conda
updated by ATpoint ATpoint • written by marco.barr • marco.barr
0 votes
1 reply
1.2K views
Difference between samtools stats insert size and TLEN in SAM/BAM file.
samtools insert-size sam
updated by Ram Ram • written by krzysm20009042 • krzysm20009042
1 vote
11 replies
3.0K views
Can't increase font size for x axis
r ggplot2
written by Chris • Chris
0 votes
0 replies
727 views
Orientation bias in Mutect2 variant calling
mutect variant-calling
updated by Ram Ram • written by nicola.calonaci • nicola.calonaci
0 votes
1 reply
1.2K views
Is it possible to index VCF files and merged the CNVs therein contained using VCF files created from exome sequencing data
variant-calling
updated by Ram Ram • written by yawolberg • yawolberg
0 votes
2 replies
960 views
How to find the mapping file for converting Illumina reports SNPid to rsid for build 28 ?
illumina
written by vasank1958 • vasank1958
1 vote
0 replies
834 views
Predicting ddG stability of multi-mutation protein variants
ddg protein-stability
updated by Ram Ram • written by liorglic liorglic
0 votes
4 replies
1.3K views
Make the normalized counts from treatment relative to control-EdgeR
normalized-counts edger
updated by Ram Ram • written by Pamela • Pamela
1 vote
2 replies
1.6K views
How to Specify genome version (GRCh37 release 104) in VEP REST API?
vep
updated by Ram Ram • written by gcampof • gcampof
0 votes
4 replies
1.6K views
Missense variant proteins 3D Structure prediction
model protein-structure alphafold
written by Esraa • Esraa
0 votes
2 replies
852 views
Can I analyze single-end and paired-end RNA-Seq data together?
rna-seq
updated by pinheirofabiano • pinheirofabiano • written by roxana • roxana
0 votes
1 reply
712 views
T cell subtype annotation
seurat single-cell singlecellexperiment
updated by allingt • allingt • written by georgii.vdovin • georgii.vdovin
0 votes
0 replies
661 views
Job: PhD positions for autoimmune disease at UKSH/Uni Luebeck
phd autoimmune-disease
updated by Ram Ram • written by alwayshope • alwayshope
1 vote
14 replies
3.5K views
vg installation on MacOS failing: "ld: -headerpad: not a hexadecimal number: -headerpad_max_install_names"
macos vg
updated by GenoMax GenoMax • written by Nathan • Nathan
0 votes
6 replies
3.0K views
SPADES Result Comparison
illumina genome spades assembly
written by SomeOne • SomeOne
0 votes
0 replies
672 views
How to Obtain a GMT File for Pathway Enrichment Analysis in Gallus gallus Metabolomics Data?
metabolomics gsea pathways gmt
written by DareDevil DareDevil
0 votes
0 replies
671 views
mismatch allele problem PLINK
plink
updated by Ram Ram • written by luca.sclisizzo • luca.sclisizzo
0 votes
0 replies
607 views
RepeatMasker. Repeat identification.
repeatmasker
written by Николай • Николай
0 votes
0 replies
724 views
News: Online course: Metabolomics with R/Bioconductor (5th edition)
metabolomics bioconductor r
updated by Ram Ram • written by Physalia-courses Physalia-courses
0 votes
1 reply
974 views
I am getting an error with Kallisto Bustools wrapper (kb) command to create an index
kb kallisto bustools
updated by dsull dsull • written by biotrekker • biotrekker
0 votes
12 replies
3.3K views
Custom Genome Curation in IGV
igv
updated by rfran010 • rfran010 • written by kerfuffle • kerfuffle
0 votes
4 replies
2.3K views
Missing Output Exception Error in Snakemake with output directory
snakemake genome
updated by Ram Ram • written by diop.awa94 • diop.awa94
0 votes
20 replies
5.4K views
How to produce a single joint-called VCF file using as input three WGS samples (VCF,CRAM,FASTQ)
vcf wgs
updated by Ram Ram • written by shwivel • shwivel
0 votes
2 replies
1.4K views
Is the 10X multiome chemistry most similar similar to 10XV1, 10XV2, or 10XV3?
snrnaseq kallisto 10x
written by biotrekker • biotrekker
1 vote
3 replies
2.0K views
Estimating per-variant heritability from summary stats
variants snp gwas
updated by LauferVA LauferVA • written by Daniel • Daniel
0 votes
5 replies
3.9K views
10X #3' RNA seq - How is strandedness determined?
scrna-seq
updated by Ram Ram • written by Ashley • Ashley
1 vote
2 replies
2.8K views
Mugsy alignment of 2 genomes
genome alignment
updated by skoplik • skoplik • written by martha • martha
0 votes
0 replies
580 views
Mugsy aligner kills alignment with "can't find species error"
aligner mugsy wga
updated by Ram Ram • written by skoplik • skoplik
0 votes
9 replies
2.5K views
Gene enrichment tools options
david shinygo gene-enrichment
updated by geneontologyhelp • geneontologyhelp • written by Sahara • Sahara
0 votes
3 replies
1.3K views
Help with heatmaps
deseq2 genecounts heatmap rnaseq
updated by LauferVA LauferVA • written by rb_99 • rb_99
0 votes
1 reply
1.0K views
GATK CNV pipeline gcnvkernel import error
theano gcnvkernel gatk cnv hpc
written by Maverick • Maverick
1 vote
3 replies
1.7K views
Does single-end short-read sequencing affect the mapping of mitochondrial and ribosomal RNA?
pair-end single-end rna-seq
updated by kalavattam • kalavattam • written by txema.heredia • txema.heredia
0 votes
25 replies
6.3K views
How can I convert multiple bam files in a directory into fastq files using samtools bam2fq?
samtools bam fastq
written by Arthur • Arthur
0 votes
0 replies
727 views
ddRADseq: GATK not matching STACKS refmap in terms of resolution?
polyploidy radseq variant-calling stacks gatk
updated by Ram Ram • written by Valentin • Valentin
0 votes
2 replies
1.2K views
How to Convert a tar file to a fastq file in Galaxy
galaxy
updated by Mensur Dlakic Mensur Dlakic • written by rita • rita
0 votes
2 replies
1.2K views
Help with cnet plot for customize pathway from MSigDb
cnet
written by Chris • Chris
0 votes
1 reply
740 views
MCScanx is giving an Empty Output
mcscanx
updated by Pierre Lindenbaum Pierre Lindenbaum • written by agnes.barros88 • agnes.barros88
1 vote
14 replies
3.1K views
FastQC GC-content, bimodal for maize?
rna-seq
written by boczniak767 boczniak767
0 votes
1 reply
911 views
RNA-seq, TMM and rRNA counts. Should rRNA genes be removed prior to DE analysis?
mtrna rna-seq rrna tmm
updated by Shred Shred • written by gjuik • gjuik
0 votes
8 replies
3.5K views
Out of Sequencer Nanopore Raw Data
fastq assembly fast5 genome nanopore
updated by GenoMax GenoMax • written by SomeOne • SomeOne
0 votes
1 reply
829 views
KO number id to gene symbol
r
updated by BioinfGuru BioinfGuru • written by sooni • sooni
0 votes
16 replies
4.1K views
How to use NCBI annotation instead of Ensembl in analysing Transcriptome from RNAseq data
txdb ensembl ncbi rnaseq
written by Vojtěch • Vojtěch
0 votes
2 replies
1.1K views
SNP or Variant Calling and Annotation with RNA-seq Reads
rna-seq variant alignment
updated by dthorbur dthorbur • written by vireen105 • vireen105
0 votes
13 replies
2.7K views
Error with plotMDS in R
plotmds rstudio
written by egascon • egascon
0 votes
3 replies
835 views
Using samtools to determine Rh blood type
samtools
written by esiv • esiv
0 votes
1 reply
971 views
Comparison of the AA position of domains on cBioPortal and UniProt
uniprot cbioportal
written by larissa.kluxen • larissa.kluxen
0 votes
1 reply
738 views
Changing the .gmt file output format
gmt
updated by Ram Ram • written by Delicious_Puddin-chan • Delicious_Puddin-chan
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