This is a test version of Biostars. For the public version, visit https://www.biostars.org.
1 vote
0 replies
529 views
checkm lineage.ms output file
checkm lineage
written by A_heath • A_heath
11 votes
14 replies
14K views
Finding Rrna Genes In Metagenomic Data
rna rrna metagenomics
updated by Ram Ram • written by toshnam toshnam
1 vote
12 replies
2.6K views
Variant calling of GBS data
gbs variants bqsr
written by Bushra Bibi Bushra Bibi
0 votes
11 replies
2.6K views
RNA seq aligner?
alignment
written by tesfaye • tesfaye
0 votes
6 replies
1.9K views
Coverage depth map of genome from multiple sample coverage bedgraphs?
bedops bedmap coverage
written by Agastya • Agastya
0 votes
2 replies
1.3K views
Forum: Can questions and answers on biostars be asked only in English? Can't I use Russian for example?
language
updated by Michael Dondrup Michael Dondrup • written by avpuzanov • avpuzanov
0 votes
0 replies
509 views
OSCC Dataset downlod using TCGA biolink
r ossc tcgabiolink gdc
updated by Ram Ram • written by Biogeek • Biogeek
3 votes
1 reply
1.8K views
Tool: TGSFilter, An ultra-fast and efficient tool for long reads filtering and trimming
genome-assembly filtering reads trimming
updated by Yingzi • Yingzi • written by Huiyang • Huiyang
0 votes
3 replies
1.2K views
two channel detection in SNP-chip
dna snpchip 2-channel
updated by LChart LChart • written by Barma • Barma
0 votes
3 replies
1.1K views
Reference mouse phased vcf
mm10 vcf phasing beagle
written by machoo • machoo
0 votes
0 replies
603 views
Public datasets for genome-wide level mRNA-protein correlation calculation?
correlation protein mrna
written by Shicheng Guo Shicheng Guo
0 votes
0 replies
490 views
What is the usual basecalls length and reference mapping length relationship?
genome alignment rna-seq
updated by Carlo Yague Carlo Yague • written by anne • anne
0 votes
1 reply
884 views
Difference in relative abundance between MicrobiomeDB and r phyloseq
phyloseq
updated by Chris Dean • Chris Dean • written by benkosta • benkosta
0 votes
5 replies
2.1K views
How to filter Illumina Nirvana variant annotation?
nirvana filtration
updated by Pierre Lindenbaum Pierre Lindenbaum • written by Kauno tvirtovės • Kauno tvirtovės
0 votes
0 replies
866 views
News: Online course: Introduction to GWAS
gwas imputation statisticalpower
written by Physalia-courses Physalia-courses
0 votes
0 replies
622 views
beta coefficient improves after doing mediation analysis
coefficient mediation beta regression
written by rheab1230 • rheab1230
0 votes
3 replies
1.8K views
Can shotgun metagenome approaches effectively target both RNA and DNA viruses in low-viral-load water samples?
rna-virus binning metagenome abundance shotgun
updated by noodle noodle • written by mathavanbioinfo mathavanbioinfo
0 votes
1 reply
2.3K views
Help with SCENIC+
scenic-plus
updated by corbettberry • corbettberry • written by Chris • Chris
0 votes
2 replies
1.7K views
What is meant by 'genomic order' in gatk's GatherVcfs, and how do I check for it?
gatk vcf merge
updated by Pierre Lindenbaum Pierre Lindenbaum • written by 8armed • 8armed
0 votes
2 replies
1.3K views
How to extract unmapped reads to assemble a plasmid
plasmid transconjugant reference-genome
written by Barbara • Barbara
0 votes
16 replies
3.5K views
What is the sequence origin in human plasma?
human sequence cfdna
written by biwdpang • biwdpang
0 votes
0 replies
1.0K views
Cromwell slurm singularity call caching
cromwell singularity wdl
written by asmariyaz23 • asmariyaz23
0 votes
1 reply
681 views
Getting error in alignment using STAR
star
updated by Ram Ram • written by pavithra.bioinformatics • pavithra.bioinformatics
0 votes
1 reply
2.5K views
Speed up PHASE software for haplotype inference
multithreading unix haplotype
updated by WANG • WANG • written by kshitijtayal • kshitijtayal
1 vote
1 reply
843 views
GIS overlay for environmental samples from NCBI
ncbi environmental sra gis arcpro
written by noodle noodle
0 votes
1 reply
959 views
PCA script correction
correction script pca
updated by BioinfGuru BioinfGuru • written by prity6459 • prity6459
0 votes
5 replies
1.5K views
Losing my mind with a VCF problem
vcf bcftools
updated by Michael Dondrup Michael Dondrup • written by a.beggs • a.beggs
0 votes
18 replies
4.5K views
error when running phg create-maf-vcf to build a built practical haplotype graph (v2)
pangenome phg_v2 plants phg
written by b.contreras.moreira • b.contreras.moreira
2 votes
15 replies
10.0K views
Why are there many reads with green color in IGV of RNA-seq data?
rna-seq igv mapping
updated by vague-barracuda-4686 • vague-barracuda-4686 • written by Apprentice Apprentice
0 votes
6 replies
1.9K views
Need help understanding core SNPs
snps snippy
written by ujichu • ujichu
0 votes
1 reply
763 views
genome.fa to indix files to use it in rna-seq analysis
rna-seq hisat2 index
updated by GenoMax GenoMax • written by Hasan_Daaboul • Hasan_Daaboul
1 vote
1 reply
1.6K views
Tutorial: Parsing HMMER output
hmmer
updated by Filipe • Filipe • written by I0110 I0110
0 votes
5 replies
2.2K views
Searching for gene in multiple genomes
gene genome alignment sequence
updated by BioinfGuru BioinfGuru • written by Miya • Miya
0 votes
0 replies
1.0K views
Only positive enrichment score in GSEA
enrichmentanalysis clusterprofiler gsea bioconductor rnaseq
written by enee • enee
0 votes
10 replies
3.2K views
Nextflow ERROR : Timeout waiting for connection from pool
nextflow
written by dzisis1986 • dzisis1986
0 votes
0 replies
773 views
How to identify the phylogenetic node age of RNAs?
phylogeny genome evolution rna-seq
written by Apex92 • Apex92
0 votes
9 replies
2.0K views
Intersect genomic locations with genes
fanc chromatin conformation hic hic
updated by zx8754 zx8754 • written by naveedhasan2000 • naveedhasan2000
0 votes
3 replies
1.0K views
How to proceed with downstream analysis after tumor-only snp calling using Varscan2?
snv compressing varscan bcftools
written by kabir.deb • kabir.deb
0 votes
0 replies
610 views
Questions on demultiplexing using Qiime2
demultiplexing barcode
written by Minh • Minh
1 vote
3 replies
4.9K views
How to remove variants with 3+ alleles present Plink1.9
haplotypecaller gatk plink1.9 vcftools
updated by Jingjingzhang • Jingjingzhang • written by ramshahaya • ramshahaya
0 votes
3 replies
1.4K views
RNAseq
r rna-seq linux
written by mrymrahimi70 • mrymrahimi70
0 votes
4 replies
1.8K views
calculating mean fragment length from CollectInsertSizeMetrics(Picard) output
count2fpkm
updated by ATpoint ATpoint • written by Niharika • Niharika
0 votes
2 replies
1.2K views
Annotating indels and SNVs
annotation indels snv
written by am29 • am29
0 votes
4 replies
1.3K views
HISAT2 installation issue
hisat2
updated by GenoMax GenoMax • written by eleven11 • eleven11
0 votes
8 replies
3.0K views
Fine-tuning NCBI taxid / taxidlist
blast taxonomy
written by theclubstyle • theclubstyle
0 votes
0 replies
618 views
Problem encountered during Pearson Correlation Analysis between two immune cell subtypes
scrna-seq biostatistics
written by applepie • applepie
0 votes
14 replies
6.7K views
Not getting any modification calls in nanopore reads with dorado basecaller
mofications dorado basecalling nanopore methylation
updated by GenoMax GenoMax • written by njornet • njornet
0 votes
6 replies
1.6K views
Download Panther entry list
panther
written by Nicolas • Nicolas
0 votes
0 replies
795 views
Troubleshooting SCTransform Error in Seurat: "Can't use NA as row index in a tibble for assignment"
sctransform
updated by Ram Ram • written by Anisha • Anisha
0 votes
0 replies
635 views
scRNA Cell Clustering Defined by Normalized Counts
normalization scrna seurat
written by sakura • sakura
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