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1 vote
5 replies
1.8K views
Practical Haplotype Graph v2 not finding correct paths
pangenome phg graph
written by beantkapoor16 • beantkapoor16
0 votes
1 reply
1.0K views
DRAGEN gVCF files and joint calling GATK-GenomicsDB
dragen genomicsdb
updated by DBScan • DBScan • written by brunomiwa • brunomiwa
0 votes
0 replies
462 views
Last step of metagenome analysis before visualization
metagenome python analyis
written by Ayda Ecem • Ayda Ecem
0 votes
3 replies
1.1K views
Generating a Bed file from a Fasta file
bed nullseq
updated by Ram Ram • written by pirku • pirku
0 votes
3 replies
3.2K views
Running STRUCTURE from command line
structure
updated by Ram Ram • written by giulia.trauzzi • giulia.trauzzi
0 votes
3 replies
3.4K views
Pruning Phylogenetic Trees and Bootstrap Values
phylogenetics bootstrap
updated by Klaus S Klaus S • written by Zeng Hao • Zeng Hao
1 vote
1 reply
1.4K views
Herald: The Biostar Herald for Monday, November 01, 2021
herald
updated by usa.cd.genomics • usa.cd.genomics • written by Biostar Biostar
4 votes
10 replies
14K views
T2T-CHM13 "complete" human genome gff/gtf annotation file
genomics
updated by usa.cd.genomics • usa.cd.genomics • written by noodle noodle
0 votes
0 replies
584 views
How to recover the entire sequence from all_contig_annotations.csv?
vdj single-cell tcr-seq cellranger 10x
written by dawnyipingzou • dawnyipingzou
0 votes
4 replies
1.3K views
Where to find old version of GATK best practice
gatk
written by Zhenyu Zhang Zhenyu Zhang
0 votes
1 reply
858 views
Nextflow docker: Error response from daemon
sarek gatk4 docker nextflow
updated by Pierre Lindenbaum Pierre Lindenbaum • written by Peter Chung Peter Chung
0 votes
0 replies
727 views
News: Online course- Advanced Python for Life Sciences
python-programming data-visualisation machine-learning
updated by Ram Ram • written by Physalia-courses Physalia-courses
0 votes
2 replies
2.0K views
CreateSeuratObject taking very long
seurat
written by eae6d2e7 • eae6d2e7
0 votes
2 replies
2.0K views
Elbow plot question (scRNA seq data analysis - scanpy tutorial)
scanpy
written by ojaswinipandey • ojaswinipandey
0 votes
4 replies
1.5K views
How to find SRA sequences of some fungal whole genome sequences if only Biosample ID is available?
sra whole-genome-sequencing ncbi
updated by Ram Ram • written by Harshita • Harshita
0 votes
4 replies
1.3K views
Filter Genome for Specific Sites
bedtools
updated by Ram Ram • written by Anita • Anita
0 votes
3 replies
1.2K views
Error in using BioSampleParser tool: subscript out of bounds
r
updated by marco.barr • marco.barr • written by Mohamed Samir • Mohamed Samir
0 votes
1 reply
947 views
Generating Group/Cluster Lists from fastq files
sequencing rna-seq dna-seq
updated by GenoMax GenoMax • written by niruf • niruf
0 votes
0 replies
692 views
News: Online course: Network analysis in Systems Biology with R/Bioconductor
bioconductor systems-biology network-analysis r
updated by Ram Ram • written by Physalia-courses Physalia-courses
3 votes
0 replies
26K views
Herald: The Biostar Herald for Monday, May 20, 2024
herald
written by Biostar Biostar
0 votes
2 replies
1.3K views
vcf phasing
beagle whatshap phasing
written by safeassli • safeassli
0 votes
2 replies
1.2K views
How to generate an Upset plot in R to plot the shared variants between cell free DNA samples
r upset
written by sainavyav22 • sainavyav22
0 votes
1 reply
2.1K views
Illumina methylation EPIC V2 array
ewas methylation enrichment missmethyl epic
updated by fu_entomology • fu_entomology • written by juliviglino • juliviglino
0 votes
2 replies
886 views
How to find identical sequences in genome fasta file (by Python or any possible program) ?
fasta
updated by Ram Ram • written by Sony Nguyen • Sony Nguyen
0 votes
3 replies
1.8K views
GATK Structural Variants Pipeline - Steps
sv gatk variant-calling
updated by Ram Ram • written by Bioinformatics_begginner • Bioinformatics_begginner
0 votes
0 replies
795 views
Is it possible to keep gene_id and gene_name columns using Seurat::Read10X?
seurat single-cell scrna-seq
updated by Ram Ram • written by ev97 • ev97
0 votes
1 reply
778 views
GO analysis: Indicate genes corresponding to the pathway
geneontoloy go r
updated by marco.barr • marco.barr • written by sooni • sooni
0 votes
1 reply
699 views
How to hide label in layout file of MCscan (python version)
mcscan
updated by GenoMax GenoMax • written by jinyi • jinyi
0 votes
0 replies
485 views
How to deal with possibly important predictors omitted during the building of an OLS multivariant linear regression model?
multivariant-linear-regression
updated by Ram Ram • written by JorgeVallejo • JorgeVallejo
0 votes
0 replies
599 views
transcriptome annotation
annotation trinity transcriptome
updated by Ram Ram • written by Asim Bin Arshad • Asim Bin Arshad
0 votes
6 replies
1.5K views
Why most genes have high padj values
rna-seq deg
updated by Ram Ram • written by mnx0723 • mnx0723
0 votes
14 replies
6.1K views
How to find tandem duplications pattern in a DNA sequence
repeat
updated by micah • micah • written by kumajis • kumajis
0 votes
1 reply
1.1K views
PCA Visualization error in R - arguments imply differing number of rows
snps pca gbs linux r
updated by zx8754 zx8754 • written by Ali • Ali
0 votes
4 replies
1.6K views
GO analysis: p-value range
go r
updated by Matthias Zepper Matthias Zepper • written by sooni • sooni
3 votes
4 replies
1.6K views
News: ICGEB - SLIBTEC NGS Workshop: Won Best Oral Presentation Award
besttalk platformpresentation offtopic
updated by Ram Ram • written by Dr. • Dr.
0 votes
3 replies
1.2K views
seqtk subseq in.fastq list.txt > out.fastq not extracting full sequence from input file
subseq seqtk extractionproblem
updated by GenoMax GenoMax • written by KHURRAM SHAHZAD • KHURRAM SHAHZAD
0 votes
0 replies
505 views
Challenges of Affymetrix probe IDs for grouping similar genes to calculate their mean
r mean affymetrix probes grouping
written by Maryam • Maryam
0 votes
4 replies
1.4K views
scRNA-seq data trained model can be used for predictions on bulk RNA-seq data?
rna-seq
written by Bibi • Bibi
1 vote
2 replies
2.9K views
is there a tool to recover corrupted fastq files
fastq short-read
updated by Tommaso • Tommaso • written by pt.taklifi pt.taklifi
0 votes
0 replies
680 views
handling bio replicates for chromHMM
replicates chromhmm
written by Hasan_Daaboul • Hasan_Daaboul
0 votes
0 replies
508 views
Tool for within-sample ligand-receptor analysis (bulk RNA-seq) ?
cell-cell communication ligand-receptor self-regulation
written by DGTool • DGTool
0 votes
1 reply
1.1K views
geom_bar issue in ggplot2 with xlim()
geom_bar ggplot2 statistics r
updated by ATpoint ATpoint • written by rj.rezwan • rj.rezwan
0 votes
2 replies
1.5K views
Design for complex RNA-Seq experiment using Deseq2
model.matrix rna-seq limma deseq2 edger
written by Ezequiel • Ezequiel
2 votes
0 replies
522 views
Tool: Sequence alignment on split read event such as inversion, duplication and complex nested events.
minimap alignment ngmlr
written by micah • micah
0 votes
0 replies
561 views
problems in installing rDock
rdock
updated by Ram Ram • written by Rodolfo Adrián • Rodolfo Adrián
0 votes
6 replies
5.4K views
CellRanger output more cells than specified using --force-cells? Why?
scrna-seq cellranger
updated by scideas • scideas • written by rohitsatyam102 rohitsatyam102
0 votes
2 replies
1.6K views
Checking chromosome builds for genotyping data
gwas liftover plink
updated by Muhammad • Muhammad • written by mari.lynne • mari.lynne
0 votes
0 replies
613 views
Buzzled by retrieving metadata on bioprojects for an organism using "rentrez" package
r
updated by Pierre Lindenbaum Pierre Lindenbaum • written by Mohamed Samir • Mohamed Samir
0 votes
0 replies
487 views
Tera-scale metagenomic coassembly tool
co-assembly metagenomics
written by Moinuddin • Moinuddin
0 votes
1 reply
945 views
RNAseq coverage vs depth for transcript isoform expression?
rnaseq
updated by Gordon Smyth Gordon Smyth • written by marineandriot • marineandriot
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