This is a test version of Biostars. For the public version, visit https://www.biostars.org.
0 votes
2 replies
1.6K views
Is It Possible to Calculate Microsatellite Instability (MSI) Directly from MAF Files or TCGA Data?
instability maf microsatellite msi
written by Jaber • Jaber
0 votes
4 replies
1.9K views
Calculating TMB for TCGA data
mutations maftools tmb
updated by Zhenyu Zhang Zhenyu Zhang • written by Jaber • Jaber
0 votes
4 replies
1.4K views
cnv detection in cow
cow cnv
written by hamideh • hamideh
0 votes
2 replies
1.1K views
Extract directionality from Reactome
pathways reactome biopax
written by Nikolas • Nikolas
0 votes
3 replies
1.2K views
Converting alignment in image format to text
image alignment text
updated by GenoMax GenoMax • written by Hansen_869 • Hansen_869
0 votes
1 reply
763 views
Global alignment of protein sequences all x all to identify similarities between them
needle protein global-alignment emboss
updated by Ram Ram • written by Bruna Avelino • Bruna Avelino
0 votes
2 replies
3.0K views
Fastp Trimming for WGS
fastp fastq preprocessing wgs
updated by GenoMax GenoMax • written by j.k3096 • j.k3096
1 vote
4 replies
1.5K views
PossionDis method for identification of differentially expressed genes.
differential-expression deg statistics rnaseq
updated by Ram Ram • written by M • M
0 votes
4 replies
1.9K views
Issues adding GTF track to split genome on IGV
igv
updated by Michael Dondrup Michael Dondrup • written by Daisy • Daisy
0 votes
1 reply
1.2K views
Identifying gene copy number in genome assembly
cnv assembly copy-number gene
updated by lieven.sterck lieven.sterck • written by pedro.rrmb • pedro.rrmb
0 votes
5 replies
3.2K views
Public patient database for Alzheimer's disease patients
database
updated by Moris • Moris • written by Tobias Tobias
0 votes
4 replies
1.5K views
Variant calling from rnaseq
calling variant rnaseq
written by Julián • Julián
0 votes
0 replies
669 views
Subtelomeric coordinates for the human CHM13 T2T genome in BED format
marbl chm13 subtelomeric t2t bed
written by eusoleroliva • eusoleroliva
0 votes
2 replies
1.2K views
Can you help me understand these lines in the completed braker.log
augustus braker genome annotation
updated by lieven.sterck lieven.sterck • written by Vijith • Vijith
1 vote
8 replies
2.3K views
DE analysis from kallisto estimated counts (only)
deviation de limma voom
updated by GenoMax GenoMax • written by Lila M Lila M
0 votes
5 replies
1.5K views
Orientation of deregulated gene in DGE analysis
limma edger dge contrasts
updated by Bastien Hervé Bastien Hervé • written by mesebaesko • mesebaesko
0 votes
3 replies
1.2K views
metaboanalystR crashing on (Mac/Windows) laptop
metabolomics metaboanalystr r-studio
updated by Michael Dondrup Michael Dondrup • written by microorganism_001 • microorganism_001
0 votes
3 replies
997 views
Do I have to remove overlapping reads from paire_end data before Metahplan?
overlapping paired_ends metaphaln
updated by GenoMax GenoMax • written by michelafrancesconi9 • michelafrancesconi9
3 votes
12 replies
10K views
How To Learn About Next Generation Gene Sequencing
sequencing
updated by Harry • Harry • written by Medhat Medhat
0 votes
4 replies
1.4K views
predector exit status (137)
predector
updated by GenoMax GenoMax • written by Bushra Bibi Bushra Bibi
0 votes
4 replies
1.4K views
Logistic regression to separate 2 conditions
marker-genes logistic-regression
updated by Mensur Dlakic Mensur Dlakic • written by yves33 • yves33
0 votes
3 replies
1.6K views
samtools version 1.17 having difficulty parsing a filtering command. advice?
samtools cell rnaseq single
updated by aw7 • aw7 • written by RNAseqer RNAseqer
0 votes
1 reply
931 views
Comparing solubility and hydrophilicity
protein hydrophilicity modelling pymol solubility
written by Hansen_869 • Hansen_869
0 votes
3 replies
1.2K views
Canu errors
genome assembly canu
updated by colindaven colindaven • written by joshua.j.wright • joshua.j.wright
0 votes
0 replies
730 views
How can I create genetic map for impute2 using vcf files containing SNPs?
imputation vcftools snps plink impute2
written by Sakib • Sakib
0 votes
2 replies
1.1K views
number of SNPs per sample in multi-sample VCF file
vcf bcftools
updated by dthorbur dthorbur • written by reza reza
1 vote
3 replies
2.5K views
R design on 2-way interaction not displaying all options
modeling design limma deseq edger
updated by mflab • mflab • written by fr fr
0 votes
6 replies
1.6K views
Strange pattern of uneven read count distribution
wgs fluctuating coverage
written by BioStar22 • BioStar22
0 votes
4 replies
1.3K views
Ontology for column naming in RNA-seq data
python scanpy anndata single-cell
updated by GenoMax GenoMax • written by AlexStar • AlexStar
0 votes
2 replies
1.8K views
FST Calculation: Resolving -nan Issue in Population Genetics Analysis
nucleotidediversity pacbio mtdna
written by hashim.rana11 • hashim.rana11
2 votes
12 replies
3.4K views
Are short reads still required for polishing?
polishing assembly nanopore dorado illumina
updated by lieven.sterck lieven.sterck • written by shelkmike shelkmike
0 votes
1 reply
851 views
downloading protein seqences from STRING database
stringdb proteinseqences stirngapi string
updated by GenoMax GenoMax • written by m.ciolek • m.ciolek
1 vote
6 replies
2.0K views
IGV: first bases of each chromosomes missing when loading genome file
igv
written by Pierre • Pierre
0 votes
2 replies
860 views
Help with treetime ancestral MissingDataError
alignment treetime multifasta
updated by Dave Carlson Dave Carlson • written by FJCF • FJCF
0 votes
1 reply
1.0K views
Single cell cluster naming
single-cell
updated by Ram Ram • written by sc_confusion • sc_confusion
0 votes
5 replies
1.6K views
STAR alignment for RNA seq - trouble occurred
alignment star rna-seq gtf
written by ohtang7 • ohtang7
1 vote
2 replies
1.9K views
Generating multiple species reference for CellRanger
cellranger mkref 10x
updated by GenoMax GenoMax • written by nathansuek • nathansuek
0 votes
0 replies
677 views
Best pipeline for calling SNPs in a bi-parental haploid population?
snp biparental illumina polymorphism bi-parental
written by barleyslayer • barleyslayer
0 votes
1 reply
1.5K views
IGV large deletions
deletion igv
updated by wakaruszka • wakaruszka • written by Mohammad Amin • Mohammad Amin
0 votes
4 replies
1.6K views
Why higher read counts in chromosome M/MT
igv mt-dna count mitochondria read
updated by wakaruszka • wakaruszka • written by Lou11 • Lou11
0 votes
1 reply
986 views
Requesting Insights on Potential Complex Structural Event Indicated by IGV
manta igv variant translocation structural
updated by wakaruszka • wakaruszka • written by pragnapcu • pragnapcu
0 votes
0 replies
475 views
Reading old ABI raw mac files
377 310 abi
written by danielmyers76 • danielmyers76
0 votes
3 replies
1.0K views
how to choose cufflinks library type from infer_experiment
rseqc rnaseq cufflinks
updated by GenoMax GenoMax • written by sgupt46 • sgupt46
0 votes
0 replies
659 views
bcftools filter appy to sub regions
bcftools filter
updated by Pierre Lindenbaum Pierre Lindenbaum • written by qwzhang0601 qwzhang0601
0 votes
0 replies
522 views
why STAR --clip[3p,5p]Nbases show up in the bam?
star clipping alignment
updated by LChart LChart • written by mk mk
0 votes
2 replies
1.4K views
Unable to link peaks to genes for multiomics data
multiomics signac atacseq
written by bgbs • bgbs
0 votes
3 replies
1.1K views
RNA-seq's strange genes
rna-seq
written by SeoG • SeoG
0 votes
6 replies
2.3K views
Could Anyone Help Me with Seurat code
doubletfinder seurat
written by ANHAO • ANHAO
0 votes
0 replies
598 views
Deconvolution cibersortx
cibersortx teleost deconvolution
written by Nerea • Nerea
0 votes
0 replies
810 views
News: Genome Assembly and Annotation course (online, 17-21 March 2025)
genome-annotation nanopore pacbio illumina genome-assembly
written by Physalia-courses Physalia-courses
Recent Votes
Recent Locations
Recent Replies