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121,920 results • Page 714 of 2439
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0
votes
8
replies
2.7k
views
Adding a gene to a GTF file
RNA-Seq
4.6 years ago by science_lizard ▴ 20
0
votes
0
replies
557
views
GO Enrichment Pichia pastoris
rna-seq gene_ontology GO_slim pichia pastoris
4.6 years ago by Adishi • 0
2
votes
5
replies
1.7k
views
bowtie2 mapping oritation problem
bowtie2 WGS DNA sequencing
updated 4.6 years ago by 35k • written 4.6 years ago by • 0
0
votes
4
replies
2.7k
views
Merge two vcf's, keep only intersection of REF/ALT alleles
vcf vcftools bcftools intersection merge
updated 3.7 years ago by ▴ 580 • written 4.7 years ago by • 0
4
votes
9
replies
11k
views
p.adjusted p value
r pvalue FDR RNA-Seq
updated 4.6 years ago by 89k • written 4.6 years ago by ▴ 160
1
vote
8
replies
2.6k
views
Beagle Conform-gt Java Error
Beagle Conform-gt Java Imputation topmed
updated 4.6 years ago by 153k • written 4.6 years ago by • 0
0
votes
0
replies
1.2k
views
Help with this error code for tool subset_taxa; Error in dimnames(x) <- dn : length of 'dimnames' [1] not equal to array extent
phyloseq biom subset_taxa Error in dimnames(x)
updated 4.6 years ago by 153k • written 4.6 years ago by • 0
0
votes
2
replies
1.2k
views
lncRNA identification from RNAseq data
lncrna rna RNA-Seq hisat2 stringtie
updated 4.6 years ago by 7.6k • written 4.6 years ago by ▴ 10
7
votes
3
replies
18k
views
Enrichment Score Interpretation
RNA-Seq R pathways gsea Enrichment
updated 13 months ago by ▴ 390 • written 4.6 years ago by ▴ 20
5
votes
4
replies
2.4k
views
Variant calling on RNA-Seq data
RNA-Seq SNP gene
updated 4.6 years ago by 4.2k • written 4.6 years ago by ▴ 10
0
votes
2
replies
1.1k
views
format problem(.beagle.gz files)
raxml
4.6 years ago by Daier ▴ 20
18
votes
12
replies
7.7k
views
Removal of repeat and blacklist regions from ChIP-seq data
ChIP-Seq Blacklist ENCODE
updated 4.6 years ago by 20 • written 8.6 years ago by ★ 3.5k
3
votes
3
replies
1.8k
views
Copy number variations from WES data
CNV WES
updated 4.6 years ago by ▴ 40 • written 4.6 years ago by ▴ 120
1
vote
1
reply
991
views
why should we cluster cells when we can label them using databases, in single cell RNA-seq analysis?
RNA-Seq rna-seq
4.6 years ago by tbg ▴ 120
0
votes
1
reply
752
views
netmatch app crash
cytoscape netmatch
4.6 years ago by am.binder.ba • 0
0
votes
0
replies
862
views
GTEX Gene Selection
GTex
4.6 years ago by Nona ▴ 90
0
votes
0
replies
786
views
Programmatically determining sequence type (g., m., c., n.)
sequence type prefix genomic coding
4.6 years ago by mike.rightmire ▴ 20
2
votes
1
reply
601
views
Graphic of expression on BrainSeq, what is on Y?
SNP
updated 4.6 years ago by 22k • written 4.6 years ago by • 0
0
votes
4
replies
1.7k
views
bedtools intersect correct usage
genome
updated 4.6 years ago by ▴ 40 • written 4.6 years ago by ▴ 30
4
votes
7
replies
2.7k
views
Mapping rate troubles
RNA-Seq alignment salmon STAR SEQmonk
4.6 years ago by thomas58 ▴ 20
0
votes
5
replies
1.6k
views
Annotate peaks and G quadruplex
ChIP-Seq
updated 4.6 years ago by ▴ 40 • written 5.3 years ago by ▴ 10
1
vote
2
replies
1.5k
views
METABRIC sample IDs
METABRIC sample cancer mRNA ID
updated 2.1 years ago by 89k • written 4.6 years ago by • 0
0
votes
5
replies
3.5k
views
Problem while using BPGA-Version-1.3 for pan bacterial genome analysis
genome software error next-gen gene
updated 4.6 years ago by • 0 • written 7.6 years ago by • 0
3
votes
4
replies
4.6k
views
GSEA pvalue output of 0.0. Can I make it more specific?
GSEA P-value
updated 4.6 years ago by ★ 1.0k • written 5.1 years ago by ▴ 280
2
votes
3
replies
5.7k
views
What Information Does The Encode Chip-Seq Peak File Contain
chip-seq encode
updated 4.6 years ago by 20 • written 14.3 years ago by ▴ 790
15
votes
2
replies
3.9k
views
Tool: EnhancedVolcano becomes a pseudo-EnhancedMA
enhancedMA enhancedvolcano
updated 2.3 years ago by 45k • written 5.1 years ago by 89k
0
votes
0
replies
701
views
whole genome sequence -meta analysis
next-gen gwas gcta genome
4.6 years ago by Neu ▴ 10
0
votes
3
replies
1.5k
views
What object in GEO2R R code environment to use for ggplot2 Volcano and listing DEG?
GEO2R R bioconductor array
updated 4.4 years ago by ▴ 290 • written 4.6 years ago by ▴ 60
11
votes
4
replies
7.4k
views
A question regarding log2 transformation in EdgeR
EdgeR log2 differentail expression analysis
updated 4.6 years ago by ★ 8.3k • written 4.6 years ago by ▴ 280
4
votes
1
reply
2.6k
views
does anyone knows how to Create a presence absence heatmap like this?
R gene
updated 4.6 years ago by ★ 19k • written 4.6 years ago by • 0
2
votes
4
replies
1.1k
views
Subtracting FASTAs to get unique sequences?
alignment sequence FASTA subtraction
updated 4.6 years ago by ★ 30k • written 4.6 years ago by • 0
0
votes
9
replies
1.6k
views
Help on local alignment. Is there any way to automate the process?
NCBI OTU metabarcoding next-gen alignment
updated 4.6 years ago by 20 • written 4.7 years ago by • 0
1
vote
1
reply
988
views
blastx diamond returns taxid "NA" for some sequence queries
blastx diamond taxonomy
4.6 years ago by pedrorodrigues ▴ 10
0
votes
2
replies
859
views
Amplicon variant calling from PacBio CCS reads
sequencing SNP
updated 4.6 years ago by 153k • written 4.6 years ago by ▴ 20
0
votes
3
replies
1.1k
views
vcf file column name error
sequencing
updated 4.6 years ago by 166k • written 4.6 years ago by • 0
4
votes
7
replies
1.6k
views
DESeq multiple factor question
R RNA-Seq sequencing differential-expression
updated 4.6 years ago by 9.0k • written 4.6 years ago by ▴ 20
1
vote
11
replies
3.5k
views
GATK HaplotypeCaller Error
software error rna-seq gatk
4.6 years ago by sahar.salimi92 • 0
0
votes
0
replies
519
views
How to remove NAs from mset object in MetaboAnalystR
r mummichog metabolystr
4.6 years ago by lewhiteside ▴ 10
0
votes
0
replies
1.2k
views
Job: Division Safety Coordinator at Berkeley Lab in Berkeley, CA
safety biosciences
updated 2.3 years ago by 45k • written 4.6 years ago by ▴ 70
0
votes
4
replies
2.6k
views
Snakemake aggregate input from rule with wildcards
snakemake
updated 4.6 years ago by 23k • written 4.6 years ago by • 0
1
vote
5
replies
1.6k
views
Cell type assignment for non-model organism single cell RNA-seq
RNA-Seq scRNA-Seq single cell non-model organism
4.6 years ago by predeus ★ 2.1k
1
vote
4
replies
1.3k
views
Heatmap of top 20 genes
RNA-Seq
updated 4.6 years ago by 45k • written 4.6 years ago by • 0
0
votes
0
replies
705
views
designing primers from CIRI2 output
RNA-Seq circRNA validation
updated 4.6 years ago by 20 • written 4.7 years ago by • 0
4
votes
8
replies
1.9k
views
COG database merger python code update (part-2)
python COG database
4.6 years ago by MSRS ▴ 590
0
votes
0
replies
632
views
How can I efficiently visualize ribosome positions?
Ribo-seq RNA-Seq rna-seq R NGS
4.6 years ago by taufiqbge • 0
6
votes
10
replies
3.6k
views
Running blastp locally though the NCBI nr dabase taking is weeks to run.
assembly
4.6 years ago by Bacteria_forever ▴ 10
4
votes
8
replies
1.9k
views
Extracting the Best sequence per genomic region in a genome based on the Best e-value
genome e-value parsing
updated 3.6 years ago by 45k • written 4.6 years ago by ▴ 20
1
vote
5
replies
1.7k
views
Human WGS :which genome reference
genome alignment reference
updated 4.6 years ago by 89k • written 4.6 years ago by ▴ 120
0
votes
1
reply
1.2k
views
Experience with BaseRecalibratorSpark and ApplyBQSRSpark
gatk somatic mutations snp
updated 4.6 years ago by 7.9k • written 4.6 years ago by ▴ 420
0
votes
0
replies
1.1k
views
Job: PhD / Post-doc position: Computational Epigenomics (Saarbruecken, Germany)
phd epigenomics
updated 2.3 years ago by 45k • written 4.6 years ago by ▴ 50
121,920 results • Page 714 of 2439
Recent Votes
Comment: cellranger mkref fail/error
A: read.table does not read in all rows!
A: read.table does not read in all rows!
A: Binning Over Genes And Calculating The Coverage [Bedops/Bedmap]
Answer: [vg giraffe] Unable to add read group to BAM file
Comment: [vg giraffe] Unable to add read group to BAM file
Answer: [vg giraffe] Unable to add read group to BAM file
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Recent Replies
Comment: cellranger mkref fail/error by ATpoint 89k
I think OCM = https://www.10xgenomics.com/support/software/cell-ranger/latest/getting-started/cr-3p-what-is-cellplex#on-chip Seconding to…
Comment: miRNA low mapping ratings by Ant ▴ 50
The first one it's the results from Cutadapter and the second block from miRDeep2.
Comment: miRNA low mapping ratings by Ant ▴ 50
Thanks for the reply, when running: cutadapt -a AACTGTAGGCACCATCAAT -M 30 -o example_trimmed.fastq.gz data/xxx.fastq.gz, the sequence le…
Comment: Help with species tree with orthofinder, iqtree and branch labeling by GenoMax 153k
> I don’t have clear species labels in my headers, only sequence IDs. I have not used iqtree, so this is only a thought ... should it be y…
Comment: Help with species tree with orthofinder, iqtree and branch labeling by san96 ▴ 190
Thank you so much.
Comment: [vg giraffe] Unable to add read group to BAM file by saruman ▴ 10
Yes, it seems so. Thank you.
Comment: cellranger mkref fail/error by GenoMax 153k
> The thing is that I do not have a genome for these organisms. That is not what `cellranger mkref` is expecting. You could consider alt…
Comment: cellranger mkref fail/error by tatsispolychronis • 0
The thing is that I do not have a genome for these organisms. i made a transcriptome using TRinity and this is what I am feeding it. I do n…
Comment: Genome Assembly QC from BAM files by SomeOne ▴ 240
Hi, I am not sure if i can call them good assemblies. Although based on QUAST and BUSCO stats, everything looks too good but somehow i hav…
Comment: cellranger mkref fail/error by GenoMax 153k
You need to provide the genome reference for the `--fasta` option as noted in https://www.10xgenomics.com/support/software/cell-ranger/late…
Answer: Methods to analyse structural similarity: co-evolution vs convergence by Joe 22k
Without historical data (ancient DNA) there's no way to ever really know this for certain. The best we can do is make inferences based on t…
Answer: vcf multisample by Pierre Lindenbaum 166k
eg : https://ega-archive.org/datasets/EGAD50000001683 > Merged VCF file from sporadic Meniere disease cohort (found using https://dat…
Comment: Genome Assembly QC from BAM files by GenoMax 153k
Since this saga has been on going for a long time, it will be helpful to add a comment as to how you finally got to this point of what seem…
Comment: Methods to analyse structural similarity: co-evolution vs convergence by dthorbur ★ 3.1k
A few comments. 1. Coevolution of a trait between 2 organisms can end up with a convergent structure with another organism. It's not e…
Comment: Genome Assembly QC from BAM files by SomeOne ▴ 240
Thank you. Based on the description these two look really what i wanted to see.
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