This is a test version of Biostars. For the public version, visit https://www.biostars.org.
0 votes
0 replies
587 views
retrieve type translocation ,deletion, duplication with fusion RNA detection tools
fusions fusioncatcher arriba star
written by ieie • ieie
0 votes
2 replies
990 views
Block size of SSD file storage
snp assembly ssd
updated by GenoMax GenoMax • written by Denis Denis
2 votes
2 replies
1.3K views
Impact of the number of PCs on the clustering in scRNA seq
clustering pca scrna-seq
updated by rfran010 • rfran010 • written by npont • npont
0 votes
2 replies
1.2K views
PLINK 1.07 Segmentation fault (core dumped)
plink
written by Alice • Alice
0 votes
1 reply
968 views
Installing vg on Mac failed due to "Could not find libomp"
vg
updated by yura.grabovska • yura.grabovska • written by yuxinNing • yuxinNing
0 votes
0 replies
453 views
Integration of metabolomics and transcriptomic of
metabolomics transcriptomics
written by somanin92 • somanin92
0 votes
0 replies
451 views
Semaglutide docked in Albumin PDB
sema pdb semaglutide albumin
written by Hansen_869 • Hansen_869
0 votes
3 replies
1.7K views
Forum: Career Advice
careeradvice
updated by lakhujanivijay lakhujanivijay • written by Alwaz • Alwaz
0 votes
1 reply
798 views
Manta <DUP:TANDEM> interpretation
structural
updated by Pierre Lindenbaum Pierre Lindenbaum • written by bharata1803 bharata1803
0 votes
5 replies
4.0K views
How to completely align chromosomes/scaffolds from de novo genome assemblies using MUMMER or other tools?
visualization genome alignment
updated by Charles Plessy Charles Plessy • written by Drew • Drew
0 votes
0 replies
608 views
Read length mismatch between bam and query reads
gmap pacbio
written by 蓝寒 • 蓝寒
0 votes
2 replies
747 views
blastp for short sequences not finding a sequence that I know is in the database
blastp short
written by ricfoz • ricfoz
0 votes
3 replies
1.2K views
cytoscape Stringdb identifiers can't be mapped to uniprot or ensembl
map stringdb cytoscape
updated by Scooter Scooter • written by nicole • nicole
0 votes
2 replies
1.0K views
How to compute DS (diploid dosage) from HDS (haploid dosage) in VCF?
format question dosage hds
updated by LChart LChart • written by Nadia • Nadia
0 votes
3 replies
1.3K views
How to assess differential gene expression over gradient of treatment levels with DESeq2?
dge deseq2
updated by swbarnes2 swbarnes2 • written by CephBirk • CephBirk
0 votes
1 reply
723 views
Filtering tidySummarizedExperiment by seqnames does not work as expected
tidysummarizedexperiment tidyomics plyranges genomeinfodb
written by Kateřina • Kateřina
0 votes
2 replies
1.3K views
What statistical method would you use to compare individual microbiome samples?
comparison statistics microbiome
written by Bertalan_Takacs • Bertalan_Takacs
0 votes
0 replies
639 views
Error: All provided root_pr_nodes must be present in the principal graph. error in monocle3
monocle3 scrnaseq
written by kayah • kayah
0 votes
0 replies
440 views
select a predefined number of gene sequences from a given dataset
polymorphism to sequences how
written by Gumindu • Gumindu
0 votes
0 replies
568 views
Different counts of mapped bases between Samtools coverage and Qualimap bamqc
mapping samtools qualimap
written by pauline10albert • pauline10albert
0 votes
4 replies
1.0K views
Keep the sequencing depth info when mapping contigs in Minimap2
depth coverage minimap2
written by pauline10albert • pauline10albert
0 votes
0 replies
497 views
Variant Prioritization Tool for Mouse Transcriptome
mouse variant transcriptome prioritization
written by vireen105 • vireen105
2 votes
9 replies
2.4K views
Find "phased segments" from trio VCF?
phased vcf genotyping variants phasing
written by cmdcolin cmdcolin
0 votes
1 reply
1.0K views
Fatal error while doing MD simulation in gromacs related to residuetypes.dat
error docking gromacs md molecular simulation
updated by Mensur Dlakic Mensur Dlakic • written by Tiara • Tiara
4 votes
5 replies
3.8K views
Tutorial: Bulk RNA-seq: Different Expression Analysis with DEseq2
python pydeseq2 rna-seq
updated by Lhl Lhl • written by Julia Ma • Julia Ma
1 vote
0 replies
640 views
Conventions for designing flowcharts for bioinformatics workflows
workflow flowchart diagram pipeline
updated by Ram Ram • written by kalavattam • kalavattam
0 votes
4 replies
1.2K views
Difference in reads per cell between samples
seurat scrnaseq
written by taylor.pio • taylor.pio
0 votes
4 replies
1.2K views
variant calling and filtering
vcftools samtools bcftools
updated by lieven.sterck lieven.sterck • written by Paul • Paul
0 votes
0 replies
728 views
How best to classify consensus SVs merged from multiple callers
sv annotation variants nanopore wgs
written by eebloom • eebloom
0 votes
2 replies
869 views
Annotation of long non-coding RNAs
long noncoding rna
written by jain72744 • jain72744
0 votes
0 replies
859 views
News: Online course: Assembly and Annotation of Genomes - March 17th-21st
genome-annotation nanopore pacbio illumina genome-assembly
written by Physalia-courses Physalia-courses
2 votes
3 replies
1.1K views
suggestion for alternative splicing event detecting tools under two biological conditions
isoforms transcriptome
written by slin023 • slin023
0 votes
0 replies
889 views
Batch download AlphaFold structures
protein api python structure alphafold
written by Joe Joe
0 votes
2 replies
907 views
Help for building Pipeline for Modeller
modeller pipeline
updated by Mensur Dlakic Mensur Dlakic • written by Muhammad Saad • Muhammad Saad
0 votes
0 replies
575 views
News: Online Course – Flow Cytometry Data Analysis with R/Bioconductor (March 17-20)
r bioconductor flowcytometry
written by Physalia-courses Physalia-courses
0 votes
2 replies
957 views
structural variation calling through delly is stuck at Split-read assembly step
short reads assembly
written by Bushra Bibi Bushra Bibi
0 votes
5 replies
1.5K views
Variant calling in tumor/normal pairs is calling heterozygous positions
variant
updated by Shred Shred • written by ramiro.barrantes • ramiro.barrantes
0 votes
10 replies
2.3K views
How to create a command that matches 13 characters in each column to be extracted into a new file, and leave behind the unmatched ones
featurecounts
updated by Ram Ram • written by MetagenomicsPlease • MetagenomicsPlease
1 vote
1 reply
1.2K views
Forum: Realistic expectations for the current job market?
career_advice resume job_market resume_advice employment
updated by GenoMax GenoMax • written by Mark • Mark
0 votes
3 replies
1.8K views
Is there a way to download the embeddings of Evo2?
embeddings python evo2
updated by Mensur Dlakic Mensur Dlakic • written by George • George
0 votes
1 reply
756 views
Bacterial genome visualization
plasmid bacteria genome gene
updated by GenoMax GenoMax • written by erinda • erinda
0 votes
12 replies
2.7K views
Manual conversion of VCF genotypes to nucleotide sequence
vcf nucleotide sequence
updated by cmdcolin cmdcolin • written by endretoth • endretoth
1 vote
1 reply
1.1K views
Current best practice for alignment and quantification for downstream analysis in DESeq2
r deseq2 alignment
updated by Devon Ryan Devon Ryan • written by yura.grabovska • yura.grabovska
0 votes
4 replies
1.8K views
STAR 2.7.11b FATAL ERROR could not open genome file genomeParameters.txt but it is not generated in this version
star
updated by Ram Ram • written by msimmer92 msimmer92
0 votes
0 replies
865 views
cytAssist manual alignment failing for visium HD and spaceranger count
spatial-transcriptomics visiumhd space-ranger
updated by GenoMax GenoMax • written by npont • npont
0 votes
5 replies
1.5K views
Nanopore specific assembly tool of Mitochondria
assembly nanopore mitochondria
updated by colindaven colindaven • written by adarsh • adarsh
1 vote
21 replies
11K views
install Bioconductor package and its dependencies
bioconductor r
updated by karyowgene • karyowgene • written by alessandrotestori7 alessandrotestori7
0 votes
1 reply
798 views
Biostars API Issues
visualization web-scraping api
updated by Ram Ram • written by Samuel Oluwasegun • Samuel Oluwasegun
0 votes
0 replies
467 views
interpret ligand_receptor pairs
pairs ligand multinichenetr receptor
written by mayahammoud161 • mayahammoud161
0 votes
7 replies
2.7K views
DESeq2: error in checkFullRank(modelMatrix)
deseqdataset design deseq2 rna-seq
updated by Konrad • Konrad • written by tilia • tilia
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