Limit : all time
all time today this week this month this year
117,475 results • Page 3 of 2350
Sort: Rank
Rank Views Votes Replies
0
votes
1
reply
156
views
Best kit for PacBio HiFi Sequencing preperation
PacBio-sequencing PacBio-HiFI HMW-gDNA
updated 5 days ago by 44k • written 5 days ago by • 0
1
vote
1
reply
165
views
Diffbind fold values and parameter Fold in DBA.report function
DESEQ2 ATAC-seq DBA.report Diffbind
5 days ago by Manko47 ▴ 10
0
votes
1
reply
187
views
Conservation scores at each location of few motifs in MSA
conservation-scores FASTA MSA
updated 5 days ago by 11k • written 6 days ago by • 0
0
votes
1
reply
153
views
How lambda parameter works in BLAST?
lambda BLAST
updated 4 days ago by ★ 1.1k • written 5 days ago by • 0
6
votes
3
replies
303
views
GSEA with fgsea package and using stat from DESeq2 output - what to do with NA padj values?
RNA-seq DESeq2 GSEA
5 days ago by Fossil ▴ 20
0
votes
1
reply
238
views
Editing seurat object metatdata
Seurat metadata scRNA-seq
updated 5 days ago by ▴ 40 • written 8 days ago by • 0
3
votes
1
reply
231
views
Tutorial: How to organize a computational biology project
file-organization
updated 5 days ago by ★ 27k • written 5 days ago by ★ 4.0k
1
vote
1
reply
211
views
Why the UK biobank switch off the data download facilities?
UKB
updated 4 days ago by • 0 • written 6 days ago by ▴ 10
0
votes
2
replies
290
views
How to download BLCA.focal_score_by_genes.txt from GDC
GDC
updated 6 days ago by ★ 1.2k • written 11 days ago by • 0
6
votes
3
replies
294
views
Maximum bits in ggseqlogo is less then 2?
ggseqlogo
updated 6 days ago by ★ 2.7k • written 6 days ago by ▴ 10
0
votes
0
replies
129
views
help with germline analysis using cnvkit
cnvkit
6 days ago by ww22runner ▴ 60
2
votes
4
replies
281
views
Construction of a phylogentic tree for thousands of bacterial genomes
Phylogenomics
updated 6 days ago by ★ 27k • written 6 days ago by ▴ 150
0
votes
2
replies
213
views
Adding a simple tag to VCF Info column
vcf
updated 5 days ago by 44k • written 6 days ago by ▴ 30
0
votes
0
replies
138
views
PbJelly Resume
Gap-filling PacBio PbJelly
updated 5 days ago by 44k • written 6 days ago by • 0
1
vote
1
reply
169
views
Automated methods for comparing trees
distance agglomerative compare tree
updated 6 days ago by ★ 27k • written 6 days ago by 35k
1
vote
3
replies
214
views
Pdb file isn't opening in the Desmond
Simulation MD
6 days ago by 20212854117sakib • 0
0
votes
4
replies
278
views
Bulk converting superseded TCGA UUIDs
R TCGAutils TCGA
updated 6 days ago by ★ 1.2k • written 6 days ago by ▴ 90
0
votes
1
reply
160
views
Are bam2fastq --no-aligned and samtools fastq -f 4 same?
samtools assembly spades fastq
updated 6 days ago by 162k • written 6 days ago by • 0
3
votes
3
replies
246
views
How to download Gene annotations (by Ensembl) track on NCBI Sequence Viewer 3.49.0
Sequence-Viewer Ensembl NCBI
updated 5 days ago by 44k • written 6 days ago by • 0
0
votes
2
replies
196
views
Is it possible to access controlled TCGA data through TCGA Biolinks in R?
R GDC RStudio TCGA
5 days ago by Destiny • 0
3
votes
2
replies
238
views
Seurat object with multiple PCAs/UMAPs from different assays
R Seurat
updated 6 days ago by ★ 2.7k • written 6 days ago by • 0
0
votes
2
replies
211
views
How to find column names for ENCODE ATAC-seq data?
encode atac-seq bed
updated 5 days ago by ★ 4.0k • written 6 days ago by ▴ 20
0
votes
2
replies
834
views
miRNAs pathway analysis
pathway miRNA
updated 6 days ago by • 0 • written 2.7 years ago by ★ 4.3k
5
votes
0
replies
130
views
Tool: GeneScape: A Python package for gene ontology visualization
ontology GO
6 days ago by Istvan Albert 101k
3
votes
0
replies
174
views
Herald: The Biostar Herald for Monday, June 10, 2024
herald
6 days ago by Biostar 2.9k
0
votes
0
replies
119
views
CIBERSORTx error (error in rep(2, size * length(cells) -1)) : invalid 'times' argument
deconvolution RNA-seq CIBERSORTx CIBERSORT
6 days ago by Mr. George • 0
0
votes
1
reply
158
views
Automated my docking results by using script
Receptor-ligand-interaction DSV VINA
updated 6 days ago by 44k • written 6 days ago by • 0
0
votes
3
replies
309
views
gene expression design
R gene-expression RNA-seq
updated 6 days ago by ▴ 960 • written 7 days ago by • 0
2
votes
4
replies
368
views
QC Analysis from Sanger sequencing
qc ab1 sanger
6 days ago by davidmaimoun ▴ 50
1
vote
1
reply
186
views
How to calculate the Genetic Distance (P-Distance) by using mtDNA pacBio data?
pacBio Genetic-Distance mtDNA
6 days ago by hashim.rana11 ▴ 20
2
votes
3
replies
257
views
bash for merging bam files by samtools
samtools
updated 6 days ago by 143k • written 6 days ago by ▴ 20
0
votes
1
reply
282
views
Extremely high variance of coverage for metagenomic sample (variance-to-mean ratio ~2.5)
MetaBAT metagenome coverage
6 days ago by k-tarasov • 0
0
votes
2
replies
2.9k
views
blastn_vdb "- Error opening the following db(s): "
sra sra-toolkit blast blastn_vdb wgs
updated 6 days ago by • 0 • written 7.4 years ago by ▴ 30
0
votes
0
replies
151
views
Tutorial: SingleCellExperiment object explained with a real-world example
bioconductor scRNA-seq single-cell
updated 5 days ago by 44k • written 6 days ago by ★ 4.0k
2
votes
2
replies
321
views
deeptools Compute reference-point and scale-regions
deeptools computeMatrix plotprofile
6 days ago by RD ▴ 20
0
votes
3
replies
410
views
Clusters in Differential Gene Expression Data
gdc gene-expression seurat
updated 6 days ago by ★ 1.2k • written 16 days ago by • 0
0
votes
1
reply
272
views
Exon count and GC content
Exon-count GC-content
updated 7 days ago by 162k • written 10 days ago by • 0
3
votes
4
replies
447
views
Making heatmaps of ATACseq annotation data in R?
ATAC-seq RStudio
updated 6 days ago by ▴ 960 • written 10 days ago by ▴ 10
2
votes
2
replies
214
views
What does the name of a read mean? How to find its location in genome viewer?
ukb reads
updated 7 days ago by 162k • written 7 days ago by • 0
0
votes
3
replies
288
views
Detecting a virus in RNA-Seq Data
fastq-screen Rna-seq kraken2
updated 7 days ago by ▴ 960 • written 7 days ago by • 0
1
vote
2
replies
270
views
finding housekeeping genes and small RNA sequences of Arabidopsis thaliana
housekeeping-genes RNA
4 days ago by analyst ▴ 50
2
votes
2
replies
243
views
getting RNA-seq raw counts from Kallisto
counts raw RNA-seq Kallisto
6 days ago by Meghan.T • 0
0
votes
0
replies
124
views
Difference in mapping rate when aligned with mapper.pl of miReep2 and bowtie1
miRNASeq bowtie RNASeq miRDeep2 small
7 days ago by MIKA • 0
0
votes
1
reply
202
views
What database to use for GATK baseRecalibration when using the ensembl hg19 genome
ensembl gatk
updated 7 days ago by 143k • written 8 days ago by • 0
0
votes
1
reply
217
views
Design model matrix with limma with cell different proportions estimates and batch effect
R limma deconvolution RNA-Seq
updated 7 days ago by ★ 7.2k • written 8 days ago by • 0
0
votes
1
reply
204
views
Looking for a scientific source talking about the functionality of CONCOCT and MetaBAT
sources CONCOCT assembly METABAT
updated 2 days ago by ▴ 20 • written 8 days ago by ▴ 10
0
votes
8
replies
616
views
Rstudio hangs on logisic regression using generalized estimating equations (geepack::geese())
geepack
updated 3 days ago by 44k • written 8 days ago by ▴ 30
0
votes
6
replies
403
views
Network analysis of TCGA and GTEx gene expression datasets
R GTEx studio TCGA
updated 7 days ago by ▴ 150 • written 8 days ago by • 0
4
votes
7
replies
381
views
fastq-dump not working in loop
fastq-dump
updated 8 days ago by 44k • written 8 days ago by ▴ 50
3
votes
5
replies
333
views
assemble extracted kmers into longer contigs/sequences
assembly unique kmers
8 days ago by sapuizait ▴ 10
117,475 results • Page 3 of 2350
Recent Votes
How to convert old entrez id to updated-entrez id in R?
Answer: Example human WGS fastq data
Answer: NCBI vs Ensembl - Ortholog genes Information
Answer: NCBI vs Ensembl - Ortholog genes Information
Answer: NCBI vs Ensembl - Ortholog genes Information
Answer: NCBI vs Ensembl - Ortholog genes Information
Answer: NCBI vs Ensembl - Ortholog genes Information
Recent Locations • All
Russia, 1 minute ago
Australia, 2 minutes ago
USA/New York/The Rockefeller University, 10 minutes ago
Australia, 12 minutes ago
Macao, 21 minutes ago
Japan, 26 minutes ago
Hong Kong, 29 minutes ago
Recent Awards • All
Popular Question to Meisam ▴ 230
Popular Question to devenvyas ▴ 750
Popular Question to sina.majidian ▴ 20
Popular Question to ManuelDB ▴ 80
Popular Question to nazninislamnif ▴ 20
Popular Question to mropri ▴ 150
Scholar to Gordon Smyth ★ 7.2k
Recent Replies
Answer: How to measure pairwise genetic distance in all samples of a VCF file by hewm2008 ▴ 40
you can try this tools :https://github.com/BGI-shenzhen/VCF2Dis
Comment: How to download a file from zenodo link without leaving terminal? by GenoMax 143k
You have tried to log in with one of the methods mentioned (ORCID/GitHub or a local Zenodo account) and that did not work?
Comment: BCFtools not calling variant, despite adequate coverage by mpiersonsmela • 0
yes, this seems to be the problem. I will try realigning to a version of hg38 without alt contigs.
Comment: Removing batch effect in time-series data by Álvaro • 0
I performed a clustered heatmap and PCA for all samples and the different timepoints did not group together. However, my doubts come from a…
Comment: BCFtools not calling variant, despite adequate coverage by mpiersonsmela • 0
Strange, I wonder why. Could it have anything to do with the "chr20_KI270871v1_alt"?
Comment: BCFtools not calling variant, despite adequate coverage by Pierre Lindenbaum 162k
your read is discarded because mapping quality=0
Answer: Removing batch effect in time-series data by rfran010 ▴ 960
Have you performed more formal analysis? PCA, clustering, correlation, etc... If you have a time dependent batch effect, I would expect …
Comment: BCFtools not calling variant, despite adequate coverage by mpiersonsmela • 0
I uploaded the sam file here if you want to take a look: https://github.com/samtools/bcftools/issues/2211
Comment: BCFtools not calling variant, despite adequate coverage by mpiersonsmela • 0
The reads are not duplicates. I think the color might be due to also matching the chr20 alt contig but I'm not sure. An example line from …
Comment: How to download a file from zenodo link without leaving terminal? by SlowSD • 0
Okay, are you aware of any file access setting in zenodo by changing which this can work out?
Comment: BCFtools not calling variant, despite adequate coverage by mpiersonsmela • 0
The output is: chr20 63439704 G 23 ,,,,,aa,.A.A,,a,a.aA.aA FFFFFFFFkFFFFFFFFFFFFFF
Comment: How to download a file from zenodo link without leaving terminal? by Pierre Lindenbaum 162k
https://zenodo.org/records/11791175 > The record is publicly accessible, but files are restricted to users with access. so, no.
Comment: Problem in input data loading in Structure by Mensur Dlakic ★ 27k
Error messages are usually meant to be taken literally. It says that your first line has two fewer columns than the rest of your file. It p…
Comment: How to download a file from zenodo link without leaving terminal? by SlowSD • 0
Still, a 6kb html file gets downloaded in the name of SRR396636.sra_1.fastq
Comment: How to download a file from zenodo link without leaving terminal? by Medhat 9.7k
Could you try `wget -L -O SRR396636.sra_1.fastq "https://zenodo.org/record/11791175/files/SRR396636.sra_1.fastq"`
Traffic: 1540 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6