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0 votes
2 replies
882 views
unmatched number of reads after trimming treatment by afterqc
ngs genome assembly
written by 德水 0
0 votes
1 reply
781 views
Extract Specific RNA-seq reads from BAM using deeptools
rna-seq deeptools
updated by GenoMax 16K • | written by Qilin 0
0 votes
11 replies
2.1K views
Error Correction with Tadpole and BBMerge
bbmerge tadpole error correction
written by Jon 3
0 votes
1 reply
802 views
Quantification for small RNAseq data
quantification seq data smallrna
updated by rfran010 174 • | written by ZuelTech 0
1 vote
4 replies
2.2K views
GrCh37 or GrCh38? That is the question.
grch37 sequence human genome grch38
written by Anjan 85
0 votes
2 replies
1.1K views
Scvi - Integration
integration singlecell scvi
written by t.fosk 0
0 votes
3 replies
1.0K views
Bootstrapping in RNA-seq
bootstrapping rnaseq
updated by rfran010 174 • | written by littlebioinformatician 0
0 votes
2 replies
1.1K views
Computing ka/ks ratio for individual genes.
ks ka evolution selection
written by Shakunthala Natarajan 2
1 vote
0 replies
2.0K views
Job: Several Permanent Positions as Bioinformatician/Computational Biologist/System Developer/Project Leader at Swedish national research infrastructures
sweden scilifelab genomics uppsala proteomics
written by Matthias Zepper 524
1 vote
2 replies
854 views
Obtaining a BED/GTF from Ensembl
rna-seq ensembl bcftools rna
written by joe_genome 7
0 votes
0 replies
969 views
News: New Bioconductor and Physalia Collaboration!
bioconductor dataanalysis genomics
written by Physalia-courses 281
0 votes
1 reply
935 views
Read1 and read2 asymmetry in stranded, paired-end rnaseq data aligned by STAR
stranded star rnaseq antisense sense
updated by rfran010 174 • | written by yampolsk 1
0 votes
1 reply
1.2K views
Does the order of SplitNCigarReads and MarkDuplicates affect RNA-seq variant calling results?
variantcalling. rnaseq gatk
updated by rfran010 174 • | written by iamsmor 0
0 votes
0 replies
609 views
Should I standardize age and age2 as covariates in GWAS models?
gwas covariates
written by yu 0
0 votes
6 replies
1.4K views
Venn Diagram
venndiagram
updated by lieven.sterck 1.6K • | written by Nasim Gandomdoust 0
0 votes
1 reply
699 views
PhageTerm error
phage genome phageterm assamble
updated by GenoMax 16K • | written by NIkita 0
0 votes
1 reply
790 views
WGCNA Workflow from GEO FASTQ Files – Expression Type, Sample Inclusion, and Preprocessing
fastq wgcna rna
updated by GenoMax 16K • | written by tutorwhizzz 0
0 votes
0 replies
524 views
small RNA-Seq pipeline Standstill
ngs mirna
written by anthony.santana.703.j 3
0 votes
3 replies
928 views
Construct correct contrast
contrast model-matrix design-matrix
written by jkim 25
0 votes
0 replies
492 views
piRNAs Analysis Pipelines
pirnas smallrna
written by GA 0
0 votes
1 reply
993 views
Beagle PATH (partially) recognised on Ubuntu 22.04
ubuntu beagle beast mcmc
updated by GenoMax 16K • | written by Luca Arbore 1
0 votes
0 replies
552 views
CNV Computation with HoneyBadger
cnv honeybadger
updated by GenoMax 16K • | written by mete.han.celebi 1
0 votes
0 replies
652 views
How to predict programatically TFBS and calculate PWM Score as JASPAR
pwmscan tfbs jaspar
written by t.kajiyama 0
0 votes
14 replies
2.2K views
Host Removal Issues Human/Dog with samples containing Eukaryotic species
mapping eukarotic host
updated by Ram 4.5K • | written by Jon 3
0 votes
1 reply
1.2K views
Pharokka Error
error annotating viral pharokka genome
updated by Mensur Dlakic 3.0K • | written by NIkita 0
1 vote
0 replies
644 views
Combining Metatranscriptomics (Mtx) and Metagenomics (Mgx)
metagenomics reference-based metatranscriptomics alignment
updated by GenoMax 16K • | written by rk009 1
0 votes
1 reply
784 views
how to make a circular plot of variants
circular plot
updated by Pierre Lindenbaum 17K • | written by Bushra Bibi 8
0 votes
6 replies
1.4K views
GSEA analysis
rna-seq rna analysis
updated by GenoMax 16K • | written by Ahmed 0
0 votes
1 reply
680 views
how to make go term plot and kegg pathway plot using InterProScan output
interproscan
written by Bushra Bibi 8
1 vote
3 replies
1.3K views
Why little difference in RNAseq alignment when flipping forward and reverse strand with paired end reads
mrna rna-seq bowtie alignment
updated by swbarnes2 1.5K • | written by JourneyToAbyss 25
0 votes
1 reply
624 views
Questions about sample_accession_id and file_accession_id from EGA files
ega open wgs data
updated by GenoMax 16K • | written by askif4 2
0 votes
1 reply
704 views
Functional Analysis Using EMU Output – Has Anyone Tried This?
emu
updated by andres.firrincieli 412 • | written by henrique.mouradias 0
0 votes
3 replies
966 views
featureCounts -t option not working in v2.0.8?
subread featurecounts rnaseq
updated by rfran010 174 • | written by atan 0
0 votes
1 reply
936 views
mm10 blacklist regions detailed information
sequencing dna blacklist
updated by GenoMax 16K • | written by annaA 1
0 votes
2 replies
829 views
identify unmapped regions
human illumina libraries
written by María José 1
0 votes
1 reply
873 views
martCheck - Error - You must provide a valid Mart object - for running HoneyBADGER for CNV computation
cnv biomart honeybadger
written by mete.han.celebi 1
0 votes
1 reply
831 views
How to Specify Power Parameter for Adjacency in modulePreservation() (WGCNA)
module analysis wgcna preservation
updated by andres.firrincieli 412 • | written by Berkan 0
0 votes
1 reply
669 views
filters used in mutation discovery from RNAseq data
filter rnaseq mutation
updated by GenoMax 16K • | written by htchd 2
0 votes
6 replies
1.5K views
Trouble Using GEO Files with Seurat
seurat geo scrna
updated by antonioggsousa 344 • | written by Jamie 0
0 votes
0 replies
748 views
Knowledge Graph for AI
knowledgegraph biotech ai spoke bioinformatician
written by Cornelio 0
0 votes
2 replies
1.3K views
How to convert from .spec to .bam?
bam file-formatting spec
updated by Daniel Lai 1 • | written by gmora 3
0 votes
1 reply
879 views
Insert size is zero
rna-seq fastp insert size
updated by GenoMax 16K • | written by SpliceAndScript 0
0 votes
3 replies
1.3K views
Should matched samples (not paired) be included in the DESeq2 design model?
edger limma deseq2
updated by i.sudbery 2.3K • | written by marieke 1
0 votes
4 replies
1.5K views
Trajectory Analysis scRNA-seq with one cell type and two developmental stages
cellrank palantir pseudotime-trajectory-analysis scrna-seq trajectory-analysis
written by npont 3
0 votes
1 reply
965 views
How to run trajectory analysis with only one cell type using palantir?
palantir scanpy
updated by npont 3 • | written by bioinfo 19
0 votes
1 reply
666 views
should I remove the transcripts from annotate peak region in ATAC-seq
atac-seq
updated by rfran010 174 • | written by QX 9
1 vote
2 replies
1.4K views
DESeq2 LRT test with multifactorial design
test design multifactorial lrt
written by lessismore 144
1 vote
0 replies
1.6K views
Tool: Created a better alternative to clunky gene databases, with functions that are consolidated from various gene databases. It's your one-stop shop for gene info!
browser export data search gene
written by Krish 0
1 vote
0 replies
640 views
Tool: Containerized NGS Data Processing Pipelines
rna-seq atac-seq pipeline chip-seq docker
written by Noah 3
0 votes
0 replies
576 views
Genotype Imputations Question
vcf imputations genomics
written by Jonathan 0
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