Limit : this year
all time today this week this month this year
1,000 results • Page 5 of 20
Sort: Votes
Rank Views Votes Replies
3
votes
1
reply
293
views
how to change the gene header names in a fasta file?
fasta bioawk awk seqkit
updated 5 weeks ago by 43k • written 5 weeks ago by • 0
3
votes
4
replies
1.5k
views
fastPHASE -F provided to estimate haplotype frequencies, but no freqs in output
genomics phasing fastPHASE
updated 12 months ago by 43k • written 6.1 years ago by ▴ 10
3
votes
8
replies
574
views
How to access TCGA samples that were treated with a specific drug?
TCGA RNA-seq
10 days ago by Qroid ▴ 40
3
votes
26
replies
2.0k
views
6 follow
STAR Genome index Error
STAR
updated 7 months ago by 43k • written 7 months ago by • 0
3
votes
2
replies
4.8k
views
How to plot a circular clustered heatmap with dendrogram
circular heatmap
updated 9 months ago by ▴ 30 • written 4.5 years ago by ▴ 180
3
votes
3
replies
2.8k
views
WGCNA Labeled Heatmap
heatmap wgcna
updated 7 months ago by 43k • written 2.6 years ago by ▴ 40
3
votes
4
replies
4.0k
views
FarmCPU - how to explain the reported 'effect'?
gwas
updated 8 days ago by • 0 • written 5.5 years ago by 8.5k
3
votes
4
replies
397
views
Single cell analysis with "meta".tsv.gz file
Single-cell
6 weeks ago by Estevão ▴ 10
3
votes
5
replies
806
views
CHIPSEQ : Cut AND Run , DiffBind Parameters
Cut-Run DiffBind ChIP-seq
updated 5 months ago by ★ 2.0k • written 5 months ago by ▴ 10
3
votes
4
replies
822
views
Downstream analysis with DEseq2 normalization
DEseq2 integration
5 months ago by QX • 0
3
votes
3
replies
822
views
When counting ASVs in DADA2, does a hit/count only occur at 100% alignment percent identity?
metagenomics qiime2 amplicon 16s dada2
updated 9 months ago by 3.6k • written 9 months ago by ▴ 720
3
votes
4
replies
1.1k
views
Ballgown DE analysis
R ballgown Differential-expression
updated 8 months ago by 43k • written 2.3 years ago by • 0
3
votes
1
reply
403
views
FastQC duplicates questions
FastQC RNA-seq
8 months ago by Beth ▴ 10
3
votes
1
reply
206
views
Question about methylation location
Methylation WGBS bisulfide
updated 6 days ago by ★ 2.0k • written 7 days ago by • 0
3
votes
6
replies
3.1k
views
Which of the 4 SureSelect Agilent BED files to use with GATK haplotype caller?
gatk variant calling sureselect
updated 9 months ago by • 0 • written 4.2 years ago by ▴ 750
3
votes
4
replies
486
views
Discrepancy between the downloaded clinvar, dbNSFP and website
dbnsfp clinvar
updated 5 months ago by 43k • written 5 months ago by ▴ 40
3
votes
6
replies
1.0k
views
Screen for transcription factors/genes that maybe the cause of a disease/difference in a phenotype
RNA-seq ATAC-seq
11 months ago by Chris ▴ 280
3
votes
6
replies
4.1k
views
how do Differential gene expression analysis by Salmon output
differential-gene-expression Salmon
updated 5 weeks ago by 43k • written 5.6 years ago by ▴ 100
3
votes
5
replies
699
views
ATAC-Seq and featureCounts
ATAC-Seq featureCounts
updated 4 months ago by 82k • written 4 months ago by ▴ 10
3
votes
6
replies
872
views
scRNA-seq: Consistent low number of cells and low fraction reads across the samples
scRNA-seq cells mRNA expression gene
updated 5 months ago by ★ 1.8k • written 5 months ago by ▴ 40
3
votes
3
replies
879
views
from fasta to gtf format?
gtf DE fasta
updated 4 months ago by ▴ 210 • written 3.1 years ago by ▴ 260
3
votes
5
replies
1.4k
views
AlphaMissense Plugin VEP
Plugin VEP Alphamissense
updated 7 months ago by 43k • written 7 months ago by ▴ 10
3
votes
6
replies
3.3k
views
samtools sort not working when using multiple threads
samtools bam
updated 11 months ago by 43k • written 2.3 years ago by ▴ 10
3
votes
6
replies
1.1k
views
Very different QUAL scores on VCFs of same sample using different methods
deepvariant clara-parabricks haplotypecaller vcf
10 months ago by Victor ▴ 10
3
votes
4
replies
407
views
What can cause broken read-pairs (chimeric read-pairs) in a sequencing run?
QC
3 months ago by William ★ 5.3k
3
votes
6
replies
986
views
Embryo transcriptome
database transcriptome SRA
updated 11 months ago by ★ 2.0k • written 11 months ago by • 0
3
votes
12
replies
3.1k
views
What is NCBI Gene ID, where to find it and how to convert to entrez ID?
RNA-Seq
updated 11 months ago by ▴ 100 • written 4.6 years ago by ▴ 10
3
votes
5
replies
551
views
How to assess the quality of the assembly of unmapped reads ?
Pangenome Iterative-assembly
3 months ago by Sony ▴ 10
3
votes
1
reply
588
views
PLINK .ped file issue
plink
updated 6 months ago by 43k • written 6 months ago by • 0
3
votes
3
replies
593
views
scrna pipeline
scRNA-seq
updated 10 months ago by ▴ 90 • written 10 months ago by ▴ 120
3
votes
2
replies
322
views
Seeking Guidance on How to Annotate Unusual Cell Populations in Single-Cell Data
Transcriptomics Single-Cell
updated 5 weeks ago by 43k • written 10 weeks ago by ▴ 20
3
votes
7
replies
1.1k
views
IGV not showing bigwig track information
bigwig IGV ChIP-seq
updated 6 months ago by 82k • written 6 months ago by ▴ 10
3
votes
7
replies
1.1k
views
Use giraffe in vg
giraffe vg
updated 10 months ago by ▴ 460 • written 10 months ago by • 0
3
votes
5
replies
1.1k
views
Neither pysam nor samtools reading HTTPS-sourced BAM file correctly
bam pysam samtools
updated 8 months ago by 100k • written 8 months ago by 35k
3
votes
12
replies
993
views
why 99% reads failed to align in mir-seq analysis?
Fastqc bowtie1 miRNA-seq alignment differential-expression-analysis
4 months ago by mohammadhassanj ▴ 260
3
votes
6
replies
1.3k
views
Busco Folder: prfl
gene genome sequencing
updated 11 months ago by 43k • written 4.2 years ago by ▴ 20
3
votes
9
replies
811
views
Understanding this analysis pipeline
reads
updated 10 months ago by 43k • written 10 months ago by • 0
3
votes
7
replies
517
views
Snakemake rule that runs an assessment for once after completing other previous rules
snakemake
10 weeks ago by Fadlilah ▴ 10
3
votes
7
replies
1.4k
views
Find 3'UTRs for species
Assembly alignment
updated 11 months ago by 43k • written 4.7 years ago by ▴ 110
3
votes
9
replies
701
views
STARsolo seg fault without readMapNumber flag
STAR RNA-seq STARsolo Velocyto
updated 6 months ago by 43k • written 6 months ago by ▴ 420
3
votes
6
replies
831
views
Annotating genome based on Sequence
genome annotation
updated 6 months ago by 4.6k • written 6 months ago by ▴ 30
3
votes
2
replies
434
views
Converting STAR Gene-level alignment to TPM expression
RNA-seq
updated 6 months ago by 82k • written 6 months ago by ▴ 110
3
votes
4
replies
747
views
During alignment STAR has stopped at started alignment step
STAR
updated 8 months ago by 43k • written 9 months ago by • 0
3
votes
5
replies
1.2k
views
kraken2 bacteria database 250GB+
metagenomics 16s kraken2 kraken
updated 6 months ago by 142k • written 6 months ago by ▴ 10
3
votes
2
replies
296
views
Inject haplotypes into rGFA?
Pangenome
3 months ago by agd27 ▴ 130
3
votes
8
replies
6.6k
views
7 follow
GATK genomicsDBimport intervals for WGS
gatk genomicsdbimport
updated 14 days ago by • 0 • written 5.1 years ago by 11k
3
votes
5
replies
1.1k
views
I have a pair of read files where each is a mixed pool of reads from the Linked-read technology and Illumina short-read technology. Any suggestion on…
NGS clc-genomics illumina WGS
updated 7 months ago by 43k • written 7 months ago by ▴ 30
3
votes
1
reply
391
views
GEO dataset Microarray data analysis help
R microarray NCBI GEO
updated 5 months ago by 43k • written 5 months ago by ▴ 20
3
votes
5
replies
330
views
Generating mpileup file using samtools
mpileup samtools
updated 13 days ago by 21k • written 13 days ago by • 0
3
votes
2
replies
343
views
Illumina reads to be processed and prepared for reference genome alignment
genome alignment trimming next-gen Illumina
updated 3 months ago by ★ 1.2k • written 3 months ago by • 0
1,000 results • Page 5 of 20
Recent Votes
Forward And Reverse Strand Conventions
Answer: Would you bother re-mapping RNA-seq data from an old GRCh38 build to a newer ver
Comment: Converting Degree Minutes (DM) to Decimal Degrees (DD) using python script
Answer: Details on salmon index
ATAC-seq sample normalization
Answer: Faster Needleman-Wunsch rapid global alignment of two sequences?
Comment: Faster Needleman-Wunsch rapid global alignment of two sequences?
Recent Locations • All
Macao, 2 minutes ago
India, 2 minutes ago
India, 3 minutes ago
Australia, 4 minutes ago
United States, 9 minutes ago
Canada, 12 minutes ago
Australia, 13 minutes ago
Recent Awards • All
Teacher to Rob 6.6k
Popular Question to Nyksubuz ▴ 10
Popular Question to Govardhan Anande ▴ 150
Popular Question to Lhl ▴ 760
Popular Question to Takuma ▴ 20
Popular Question to BATMAN • 0
Teacher to dario.garvan ▴ 520
Recent Replies
Comment: Add line under stat test by Nyksubuz ▴ 10
You could use [this][1] [1]: https://ggplot2.tidyverse.org/reference/geom_segment.html
Comment: API kegg - IndexError: list index out of range by Nyksubuz ▴ 10
It might be because the gene symbol is not found in the KEGG database. Add some extra error handling before parsing the results or do a man…
Comment: Sam file Header problem by saifulislam99121 • 0
Thank you for your reply. I am not very much sure about this RG. Can you explain me a bit?
Comment: GRIDSS: the Genomic Rearrangement IDentification Software Suite by dario.garvan ▴ 520
It seems that Alexandrov's [structural variant and copy number signatures][1] estimated by the [SigProfiler software ecosystem][2] aren't c…
Comment: Faster Needleman-Wunsch rapid global alignment of two sequences? by GenoMax 142k
Then you may want to see if a program like `lastz` ([**LINK**][1]) may be useful. [1]: https://github.com/lastz/lastz
Comment: Collect dispersed executable files and run them by using bingo. by Ram 43k
What is the purpose of this tool? I have `~/bin` in my $PATH and I soft-link all executables I need to that location so why install a new t…
Comment: Merge clusters in Seurat UMAP by bk11 ★ 2.4k
Can you try this? library(dplyr) seuratobj@meta.data <- seuratobj@meta.data %>% mutate(seurat_clusters = recode(seurat_clu…
Comment: Merge clusters in Seurat UMAP by kilcdincer ▴ 10
Thank you for the response but it does not change anything.
Comment: Merge clusters in Seurat UMAP by bk11 ★ 2.4k
I have not tested but you could try something like below- seuratobj$seurat_clusters[seuratobj$seurat_clusters==5]=0 seuratobj$seur…
Comment: Faster Needleman-Wunsch rapid global alignment of two sequences? by Gabriel R. ★ 2.9k
I know about it, isn't there a simple C++ static binary?
Comment: Faster Needleman-Wunsch rapid global alignment of two sequences? by Gabriel R. ★ 2.9k
needle is great! but it does not handle sequences of 100k or so.
Comment: Blastn error : ncbi::CObject::ThrowNullPointerException() - Attempt to access NU by Ram 43k
Please use the formatting bar (especially the `code` option) to present your post better. You can use backticks for inline code (\`text\` b…
Comment: Single-cell ambient RNA correction: SoupX vs decontX contamination fraction by txema.heredia ▴ 130
The point is that you need to feed the ambient algorithm a clustering list as input. This way, it checks for genes present in the soup vs g…
Comment: DEG analysis with limma and contrast matrix using multiple Parkinson's cohorts i by swbarnes2 14k
Wait, so the magnitudes of the PCs are in the thousands? That's not normal for RNASeq.
Comment: Help with VG Toolkit: VCF Output is Empty by Jordan M Eizenga ▴ 460
What do you get if you use `vg stats -a` on the GAM file?
Traffic: 1804 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