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0 votes
1 reply
720 views
phyloseq Analysis using R
phyloseq
updated by dthorbur dthorbur • written by makujabi • makujabi
0 votes
1 reply
1.3K views
Subsetting post integration in seurat V5
integration seuratv5
updated by kaelin • kaelin • written by nina.goldman.21 • nina.goldman.21
0 votes
5 replies
1.4K views
weird entry in EnhanceVolcano Volcano plot -RNAseq
deseq2 rnaseq enhancedvolcano
updated by Ram Ram • written by Yogesh • Yogesh
0 votes
5 replies
2.8K views
SNPs of a specific mouse strain
snp
updated by ayayron117 • ayayron117 • written by darklings darklings
0 votes
6 replies
2.5K views
Problem with mapping rate while using Mageck to process CRISPR screen data
crispr screen crispr-screen mageck mapping
updated by ATpoint ATpoint • written by Luwell • Luwell
0 votes
2 replies
1.3K views
Basic question but how can I search the NCBI Nucleotide database using BLAST CLI
cli blast
written by Mark • Mark
0 votes
9 replies
3.1K views
Permutations FGSEA
fgsea
written by Nona • Nona
0 votes
0 replies
480 views
Bracken+Krakenuniq
bracken krakenuniq bracken-build
written by Bhawna • Bhawna
0 votes
5 replies
1.3K views
NextSeq Data Shifted by One Line During Demultiplexing — What Could Cause This?
demultiplexing
updated by Arup Ghosh Arup Ghosh • written by pkk • pkk
0 votes
0 replies
451 views
Too many antimicrobial resistance gene from RGI bwt
wastewater rgi amr arg kraken2
written by Pratibha kadam • Pratibha kadam
0 votes
1 reply
767 views
I'm running a scATAC-seq analysis. However, the peaks I've called are somehow weird
macs2 scatac-seq signac
written by Pallondyle • Pallondyle
0 votes
1 reply
965 views
PacBio long reads and small plasmids
pacbio plasmids illumina long reads
updated by GenoMax GenoMax • written by Texx • Texx
0 votes
1 reply
1.2K views
i am having trouble with the VIBRANT embedded in Viroprofiler
vibrant viroprofiler
updated by GenoMax GenoMax • written by krmoon518 • krmoon518
0 votes
0 replies
1.1K views
HOMER findPeaks: what does -fdr actually do?
homer atac-seq calling peak dap-seq chip-seq
written by mcsimenc • mcsimenc
0 votes
0 replies
598 views
ChIP-seq Error with rtracklayer
chip-seq rtracklayer
updated by Ram Ram • written by shamzar • shamzar
0 votes
0 replies
552 views
EnrichKEGG issue
kegg overrepresentation enrichment
written by am29 • am29
0 votes
2 replies
1.1K views
Contig dereplication script not retrieving correct number of sequences
phage ani metagenomics dereplication
written by bksakdinan.12 • bksakdinan.12
0 votes
2 replies
1.1K views
Multi OMICS analysis
multi-variate multi-omics
updated by Ming Tommy Tang Ming Tommy Tang • written by SKY • SKY
0 votes
0 replies
569 views
GWAS() function error rrBLUP package for GWAS
r rstudio rrblup gwas
updated by Ram Ram • written by giulia.trauzzi • giulia.trauzzi
0 votes
4 replies
1.0K views
Mapping PCR primers to human genome
mapping primer aligner
written by Yvan • Yvan
0 votes
0 replies
947 views
Using RunAzimuth with pbmcref on mouse data
mouse scrna-seq suerat azimuth
written by Assa Yeroslaviz Assa Yeroslaviz
0 votes
1 reply
703 views
Mitochondrial Transcriptome Analysis with PacBio RNA Data using Geneious Prime
ngs rna-seq pacbio
updated by Ram Ram • written by hashim.rana11 • hashim.rana11
0 votes
0 replies
1.1K views
How to calculate F statistic in Mendelian Randomization?
mendelian-randomization f-statistic snp gwas
updated by Ram Ram • written by Luke • Luke
0 votes
2 replies
1.3K views
SIngle cell analysis
scrna-seq findvariablefeatures seurat
written by JY • JY
0 votes
0 replies
573 views
Extract mitochondrial contigs from draft contig-level genome using BLASTn
filtering mitochondrial contig blastn
written by anna_shin • anna_shin
0 votes
10 replies
3.3K views
Does mageck-vispr calculate differently than mageck?
mageck mageck-vispr pooled-screen cripsr
written by Assa Yeroslaviz Assa Yeroslaviz
0 votes
4 replies
1.4K views
Issues with pGIG : Negative probability and unexpected P value order
r distribution gamlss fitting
written by jayeshkumarsundaram • jayeshkumarsundaram
0 votes
0 replies
384 views
Bismark M-bias plot spikes in R2
methyl-seq
written by hj • hj
0 votes
1 reply
811 views
Conda Environment Issue
conda python yaml environments dependencies
updated by Ernest Bonat • Ernest Bonat • written by cthangav • cthangav
0 votes
1 reply
958 views
How to fix this error, please help.
lasso
updated by LChart LChart • written by nuorain • nuorain
0 votes
1 reply
695 views
Tool: I Built a Website That Summarizes Your Research with 5 Emojis
web students career academia research offtopic
updated by Ram Ram • written by bitsofadventures • bitsofadventures
0 votes
8 replies
2.3K views
Question on batch effect for a bulk RNA seq analysis
rna-seq batch-effect
written by akb • akb
0 votes
2 replies
886 views
CCLE Cell lines annotations
ccle_id
updated by yura.grabovska • yura.grabovska • written by Ivan • Ivan
0 votes
6 replies
5.6K views
How do I calculate read depth of sequencing?
illumina read-depth wgs
updated by mazegriff • mazegriff • written by Madde • Madde
0 votes
1 reply
975 views
Unable to install VirSorter - Stuck on "Solving environment"
virsorter virsorter2 conda bioconda
updated by Pierre Lindenbaum Pierre Lindenbaum • written by boone5jones • boone5jones
1 vote
3 replies
1.4K views
Use of gVCF by clinical sequencing labs
gvcf
updated by Jeremy Leipzig Jeremy Leipzig • written by bdolin bdolin
0 votes
0 replies
520 views
News: ONLINE COURSE – Introduction to Machine Learning using R and Rstudio (IMLR02)
machine-learning
updated by Ram Ram • written by oliverhooker oliverhooker
0 votes
0 replies
546 views
News: ONLINE COURSE – Introduction to Single Cell Analysis (ISCA01)
single-cell scrna-seq
updated by Ram Ram • written by oliverhooker oliverhooker
0 votes
2 replies
965 views
What to do if I have both pre-treatment AND WT samples from a CRISPRscreen to analyse
crispr mageck crisprscreen screening
written by chrisgr • chrisgr
0 votes
1 reply
617 views
Can VST be called Log2 expression in a paper?
deseq2
updated by ATpoint ATpoint • written by BioSci • BioSci
0 votes
5 replies
2.0K views
Adapter removal using cutadapt and multiqc report:
cutadapt adapter multiqc illumina fastes
updated by mazegriff • mazegriff • written by ayeraselvan • ayeraselvan
0 votes
2 replies
806 views
Circos tool
karyotype circos
written by naveennavinbeast • naveennavinbeast
0 votes
1 reply
1.0K views
Feature Counts: low assigned alignments (1.9%) with -s 0: Unstranded option any assigned alignments with -s 2: reversely strandedoptionts
alignments rna-seq
updated by Ram Ram • written by francesca.catellani • francesca.catellani
0 votes
6 replies
1.2K views
0-based or 1-based file format using R pipeline?
1-based 0-based r
updated by Ram Ram • written by Sophia • Sophia
0 votes
6 replies
1.6K views
merging of two assemblies from different short-reads techniques
hybrid illumina assembly dnbseq
updated by GenoMax GenoMax • written by Andrew Yu • Andrew Yu
0 votes
4 replies
973 views
Extracting orthologues from MSA
msa
written by Christos • Christos
0 votes
0 replies
335 views
AS for KEGG analysis
rnaseq
written by SHIRUI • SHIRUI
1 vote
10 replies
2.4K views
How to handle RNA seq data with unbalanced % rRNA by group?
fastqscreen rrna deseq2 rnaseq dge
updated by Carlo Yague Carlo Yague • written by ev97 • ev97
0 votes
8 replies
2.0K views
genome annotation and GFF file formation
metaeuk gff whole-genome-annotation
updated by Juke34 Juke34 • written by manaswiniparija3 • manaswiniparija3
0 votes
0 replies
601 views
how to calculate te RSA values of each residue of a protein using DSSP?
rsa proteins
updated by Ram Ram • written by raul enrique • raul enrique
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