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0 votes
0 replies
627 views
Plotting heatmap of genes in each samples scRNA in Seurat
scrna heatmap
written by Hien 0
0 votes
2 replies
1.2K views
Merging Outputs from plink --assoc and --hardy to Produce Table
plink pandas r
written by Koketso 0
0 votes
3 replies
2.0K views
Extracting data from a local NCBI taxonomy database
r ncbi xml e-utilities blast
updated by josev.die 7 • | written by Begonia_pavonina 22
0 votes
0 replies
950 views
Novel cyclic peptide structure prediction
protein structure-prediction alphafold peptide
updated by Ram 4.5K • | written by menyawino 0
0 votes
0 replies
588 views
News: Online course: Network Analysis in R
networkanalyis r
written by Physalia-courses 281
0 votes
3 replies
2.0K views
Ensembl gene id conversion
biomart ensembl
updated by ATpoint 9.1K • | written by naveedhasan2000 1
0 votes
2 replies
1.5K views
Extracting information from gff3 file produced by augustus
augustus gff3
updated by Istvan Albert 10K • | written by Jiang 0
83 votes
24 replies
33K views
Tutorial: Gene Set Enrichment Analysis
microarray enrichment rna-seq gsea
updated by Gordon 0 • | written by Hamid Ghaedi 333
0 votes
3 replies
1.4K views
Deseq2 : Paired analysis or otherwise
linear-regression paired-analysis deseq2 longitudinal-analysis
updated by ATpoint 9.1K • | written by IM 0
1 vote
1 reply
944 views
How to highlight genes on genome visual reprezentation/what tool to use?
gene genome
updated by Alex Reynolds 3.6K • | written by shiksha 1
0 votes
1 reply
1.3K views
adding gene and CDS feature types in ensemble gtf annotation with transcript and exon features
gtf gff transcript cds exon
updated by Pratik 110 • | written by Sadik Muzemil 2
0 votes
0 replies
522 views
Different flagstat number after using MergeBamAlignment
mergebamalignment samtools flagstat
written by ThomasLam 0
0 votes
4 replies
2.0K views
How to download large-scale cDNA sequences from NCBI effectively ?
ncbi. cdna
updated by Pierre Lindenbaum 17K • | written by Sony Nguyen 2
0 votes
0 replies
1.4K views
Core SNP tree VS. concatenated core genome tree
phylogenetic tree snp
written by YiweiZhu 3
0 votes
9 replies
16K views
Genome assembly statistical tools
assembly statistics
updated by skdv2522 0 • | written by margab 1
0 votes
6 replies
2.2K views
Ciriquant not configuring hisat2 indexed files
ciriquant
written by Atul K. 0
1 vote
1 reply
1.2K views
How to handle more than 1 SRA Run per Experiment?
sra preprocessing
updated by ATpoint 9.1K • | written by Janmajay 1
0 votes
2 replies
1.3K views
Help with understanding the identifier mapping tables in the backend of HUMAnN
metagenomics metacyc enzyme biobakery humann
written by O.rka 75
0 votes
6 replies
2.2K views
PacBio adapters in transcriptome assembly from short read data?
adapter transcriptome sequencing pacbio vecscreen
written by Dunois 301
0 votes
1 reply
978 views
How do I identify gene duplication or paralogs in an annotated reference genome assembly
blast duplication paralog genome
updated by san96 19 • | written by brimaloney24 0
1 vote
7 replies
2.1K views
DESeq2 Multifactor Design
rna-seq deseq2
updated by Ram 4.5K • | written by AHerik 5
1 vote
5 replies
2.2K views
Blacklist for bacterial genome [ChIPseq]?
chipseq blacklist
updated by Ram 4.5K • | written by Emily Wasson 3
0 votes
0 replies
735 views
SeuratDisk: including "counts" dataset in conversion to AnnData
seurat seuratdisk anndata
updated by Ram 4.5K • | written by roussine 1
0 votes
0 replies
600 views
I am getting more annotation hits from HOMER than I have actual peaks. Is that normal?
atac-seq homer
written by Ronin 1
1 vote
4 replies
4.8K views
How do I install plink2 on a mac?
plink2 plink
updated by zx8754 1.2K • | written by emilija.romic 1
0 votes
5 replies
1.6K views
Is it possible to set different tracks to the same scale in JBrowse
track jbrowse
updated by Ram 4.5K • | written by Jose 0
0 votes
7 replies
2.0K views
Can you suggest a protein PDB that has two chainst but only 50 total number of atoms?
protein pdb protein-databank
updated by Matthias Zepper 524 • | written by 4fzcgueyp5 0
0 votes
2 replies
1.5K views
Forum: VCF bulk handling
bcftools snpeff wgs vep vcf
written by Javier 0
0 votes
13 replies
3.0K views
RNAseq of primary tumor and metastases in two different organ
metastases rna-seq deg r
updated by BioinfGuru 214 • | written by matteo.levorato 0
1 vote
1 reply
822 views
VEP annotation --per_gene allele choice
vep
updated by Ram 4.5K • | written by atariw 1
1 vote
4 replies
2.3K views
Why number of interactions decreased in current string database for plasmodium
string interactions ppi
updated by damian.szk 8 • | written by rohitsatyam102 95
0 votes
2 replies
939 views
Are GeneExpression Subtype annotations removed from TCGA-GBM?
tcga-gbm subtyping tcga
updated by Zhenyu Zhang 130 • | written by Apollonia 0
0 votes
1 reply
775 views
RNA seq normalization and gene gene correlation
rna-seq pearson-correlation vst
updated by Ram 4.5K • | written by Fish 0
0 votes
0 replies
711 views
KaryoPlot: Gene coverage over centromeric regions
gene coverage centromere bedtools
written by Mary 0
0 votes
0 replies
700 views
Protein stability analysis
mutation analysis
written by marco.barr 22
0 votes
4 replies
1.6K views
what is the normal range of htseq-count output for homo sapiens RNA-Seq
transcriptomics htseq-count rna-seq ngs hisat2
updated by BioinfGuru 214 • | written by Morteza 0
0 votes
1 reply
923 views
how to change the gene header names in a fasta file?
fasta bioawk awk seqkit
updated by Ram 4.5K • | written by rj.rezwan 2
0 votes
1 reply
849 views
How do I get the 3bp sequence on either side of a co-ordinate
sam genomics sequencing
updated by Ram 4.5K • | written by nrav58 0
0 votes
4 replies
2.5K views
Annotation using Pfam
annotation metagenomic protein pfam
updated by Mensur Dlakic 3.0K • | written by Md Moinuddin 0
2 votes
0 replies
628 views
Tool: pySEACR
peak-calling cut-and-run
written by Adam 3
1 vote
3 replies
1.4K views
Ensembl assembly choice for DNA reference with no combined primary assembly
alignment hisat2 rna-seq ensembl assembly
updated by GenoMax 16K • | written by AHerik 5
0 votes
0 replies
549 views
Multiple Spike-Ins
merip spike-in
written by Adam 3
0 votes
0 replies
454 views
Tools for Sequence Consensus
consensus-sequence bacteria
updated by Ram 4.5K • | written by Reno 0
0 votes
0 replies
713 views
News: Online course: Meta-analysis in R
meta-analysis r
updated by Ram 4.5K • | written by Physalia-courses 281
0 votes
1 reply
992 views
Biopython Blastn Error: CPU usage limit was exceeded appears for certain files
sequences python blast
updated by GenoMax 16K • | written by Phi 0
3 votes
4 replies
5.4K views
Motif analysis of DMRs (Differentially Methylated Regions) by HOMER
next-gen
updated by Ram 4.5K • | written by inschigu 3
1 vote
0 replies
763 views
phasing tumor long-reads
nanopore ont haplotag phasing tumor
written by eebloom 11
0 votes
3 replies
2.2K views
10x GEX and ADT data analysis in Seurat
seurat scrna-seq adt cite-seq gex
updated by ATpoint 9.1K • | written by gdfsnkfns 0
0 votes
6 replies
2.2K views
Correcting coordinates in gff3 file
awk unix gff3 python
updated by Matthias Zepper 524 • | written by hulu 0
0 votes
4 replies
1.1K views
Questions about transfering wgs file to reference genome file
fasta cram genome
written by me 0
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