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122,200 results • Page 658 of 2444
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998
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Estimating error rate across my 16S MiSeq amplicon sequencing
sequencing amplicon MiSeq error
updated 4.5 years ago by 3.9k • written 4.5 years ago by ▴ 110
1
vote
2
replies
3.6k
views
10x genomics single cell RNA-Seq data submission to GEO
GEO to scRNA-Seq data submission
4.5 years ago by Nitin Narwade ★ 1.7k
0
votes
2
replies
1.4k
views
how to identify haplotypes and its frequency based SNP genotyping data?
haplotypeestimation snphaplotypes haplotype
updated 4.5 years ago by ★ 90k • written 4.5 years ago by ▴ 70
0
votes
2
replies
2.6k
views
Quantile normalization error: vector types do not match in copyVector
R
updated 4.5 years ago by 45k • written 4.5 years ago by • 0
2
votes
4
replies
2.1k
views
Looking for both RNA-Seq and Single Cell RNA-Seq data collected from the the same individuals
scRNA-seq RNASeq
4.5 years ago by ali_karimnezhad ▴ 20
1
vote
4
replies
1.6k
views
NCBI reported coverage from long and short reads
pacbio ncbi genome illumina
2.9 years ago by Morgan S. ▴ 90
0
votes
1
reply
785
views
Microbial Genome Comparison with human genome
Microbiome Genomics Comparison Genes DNA
4.5 years ago by adarsh ▴ 70
0
votes
1
reply
981
views
SmallRNA Seq Analysis on CHIMIRA
web smarna CHIMIRA
updated 2.5 years ago by 45k • written 4.5 years ago by ▴ 50
7
votes
2
replies
2.7k
views
Batch effects from sequencing samples accross multiple flow cells.
rna-seq batch batch-effect sequencing
updated 19 months ago by 45k • written 4.5 years ago by ▴ 80
1
vote
5
replies
1.6k
views
grep sequence
grep
updated 4.5 years ago by 45k • written 4.5 years ago by ▴ 140
0
votes
0
replies
896
views
Job: Postdoc in computational metabolism @ Karolinska Institutet, Stockholm
mass-spectrometry metabolomics networks algorithms
4.5 years ago by roland.nilsson • 0
3
votes
4
replies
1.5k
views
Combine full-length and 3` RNAseq, is it possible?
ExperimentalDesign RNAseq
3.7 years ago by garcesj ▴ 50
1
vote
1
reply
1.2k
views
Warning message: 'channel' automatically added to varMetadata in phenoData.
r microarray oligo celfiles
updated 4.5 years ago by ▴ 70 • written 4.5 years ago by ▴ 20
1
vote
4
replies
1.5k
views
Samtools path
CNVs NGS sequencing samtools
updated 2.4 years ago by 154k • written 4.5 years ago by ▴ 20
0
votes
0
replies
1.2k
views
Creating a VCF file with A and B allele
VCF plink allele
4.5 years ago by PKW ▴ 110
1
vote
4
replies
2.7k
views
Error in CNV Calling with Annotation
cnvkit
updated 4.5 years ago by 45k • written 6.8 years ago by ▴ 10
6
votes
5
replies
2.0k
views
can not understand algorithms
algorithms
4.5 years ago by BenHu • 0
0
votes
1
reply
1.1k
views
how to find a threshold p value for eqtl analysis
matrixeqtl
updated 4.5 years ago by ★ 1.3k • written 4.5 years ago by • 0
0
votes
2
replies
1.1k
views
Which data recommends remaining or removing for backups of NGS (WES or WGS)?
BAM BACKUP FASTQ WES REMOVE
4.5 years ago by Eleanor K Callies • 0
0
votes
5
replies
1.8k
views
STAR alignment issue
STAR RNAseq
updated 4.5 years ago by ★ 2.5k • written 4.5 years ago by • 0
0
votes
0
replies
2.6k
views
Assigngin dbsnp RSIDs to Plink .bim files using chr:pos data
vcf annotation rsid dbsnp Plink
4.5 years ago by Hamish ▴ 40
0
votes
5
replies
2.1k
views
DAVID enrichment analysis
DAVID rnaseq
updated 4.5 years ago by ★ 1.7k • written 4.5 years ago by ▴ 20
0
votes
3
replies
1.3k
views
mutation analysis, tcga
genome
updated 4.5 years ago by ★ 1.3k • written 4.7 years ago by ▴ 180
4
votes
6
replies
3.1k
views
What does it mean of de.genes in SingleR output? What is the difference between the genes in de.genes and genes in findMarkers?
SingleR scRNAseq
4.5 years ago by FantasticAI ▴ 60
0
votes
2
replies
1.2k
views
Bowtie2 index
seq RNA
4.5 years ago by aranyak111 • 0
1
vote
14
replies
4.3k
views
Comparing two variant files
variant comparison
updated 4.5 years ago by ▴ 730 • written 4.6 years ago by ▴ 120
1
vote
5
replies
3.4k
views
Concatenating gmt files from msigdb
ssGSEA RNAseq Pathway KEGG REACTOME
updated 4.5 years ago by ★ 90k • written 4.5 years ago by ▴ 390
0
votes
0
replies
555
views
Genome Dataset (include nucleotide string)
alignment SRA software fast data
4.5 years ago by ysnerdgn_38 • 0
3
votes
7
replies
2.4k
views
BLASTX script doesn't print results and never ends
blastx command-line
updated 4.5 years ago by 45k • written 4.5 years ago by ▴ 70
0
votes
0
replies
808
views
Training a layered HMM
Baum-welch EM HMM
4.5 years ago by trinityduke100 ▴ 10
0
votes
5
replies
1.6k
views
graph boxplot error
R codon boxplot ggplot2
updated 4.5 years ago by 21k • written 4.5 years ago by • 0
0
votes
0
replies
1.0k
views
How to decide between standardized mean difference (SMD) and log2fold change (log2FC) before doing meta-analysis?
standardisedmeandifference smd metaanalysis
4.5 years ago by deep771992chanda ▴ 40
1
vote
1
reply
960
views
How can I extract sequences from FASTA file using OTUs ID?
FASTA
4.5 years ago by twinklemishra0892 ▴ 10
6
votes
11
replies
4.4k
views
TCGA CNV data 1p/19q codeletion (whole arm deletion)
TCGA CNV codeletion GBM LGG
updated 2.6 years ago by • 0 • written 5.5 years ago by ▴ 20
2
votes
2
replies
1.3k
views
UCSC "chromEnd larger than chrom chr21 size (46750259 > 46709983)" error
bed customtracks peakcall UCSC
updated 4.5 years ago by 154k • written 4.5 years ago by ▴ 130
0
votes
0
replies
509
views
value in parenthesis in time tree phylogenetic tree
timetree phylogenetictree
4.5 years ago by Jung_JT • 0
0
votes
0
replies
766
views
Lambda values and lamda tree in CAFE analysis
lamba lambda_tree CAFE
4.5 years ago by Jung_JT • 0
1
vote
1
reply
1.1k
views
Whole genome fasta file for Macaca fascicularis
fasta Macaca fascicularis
updated 4.5 years ago by 154k • written 4.5 years ago by • 0
0
votes
0
replies
755
views
"significantly different" heritability
statistics heritability
4.5 years ago by gokberk ▴ 90
0
votes
0
replies
799
views
Interpretation about comparison of mapped KEGG
comparison CDS gene kegg
4.5 years ago by Jonathan Yoou ▴ 70
1
vote
4
replies
3.0k
views
Gini coefficient TCR repertoire
TCR-sequencing Gini
2.8 years ago by Lucy ▴ 170
3
votes
5
replies
5.2k
views
Varying length sequences in hhblits (hhsuite 3.3) generated MSA
hhsuite MSA hhblits
4.5 years ago by sajid ▴ 20
0
votes
7
replies
3.1k
views
Why were all TCGA SVS slides redacted?
slides slide tcga svs digital offtopic
updated 4.5 years ago by ★ 90k • written 4.6 years ago by ▴ 50
2
votes
3
replies
2.0k
views
RNA seq of xenografts
PDX RNA
4.5 years ago by salehm ▴ 10
0
votes
3
replies
4.3k
views
How to estimate the percent phenotypic variation explained by the significant SNP from a GWAS study?
GWAS variance statistics SNP R-studio
4.5 years ago by anikcropscience ▴ 270
3
votes
1
reply
2.2k
views
How to filter SNP and INDEL separately for VCF files
VCF filter
updated 4.5 years ago by 166k • written 4.5 years ago by ▴ 10
2
votes
5
replies
1.7k
views
collapsing coordinate information from a blast result
blast
updated 4.5 years ago by ★ 30k • written 4.5 years ago by ▴ 50
0
votes
2
replies
1.3k
views
isoseq ccs error "Caught IO problem handling ZMW file"
isoseq3 ccs error
4.5 years ago by wzw0029 • 0
1
vote
2
replies
1.3k
views
adjusted p-values in meta-analysis
meta-analysis adj pvalue
4.5 years ago by kindisha_blue4 • 0
0
votes
0
replies
747
views
Job: at Mogrify: Senior Bioinformatician
NGS R Python HumanDisease SingleCellSequencing
4.5 years ago by Mogrify Talent Acquisition ▴ 10
122,200 results • Page 658 of 2444
Recent Votes
strong appearing variant not found by haplotypecaller in -ERC mode and deepvariant but with haplotypecaller in normal mode
Answer: How can I easily remove overlapping transcripts, keeping only longest transcript
Answer: Log2 transformation is well used, but is there a good paper that can be used as
Answer: Flatten a GTF
Answer: RNA-seq - Creating SAF from NCBI gff for Subread featureCounts - keep 'gene' or
Can EdgeR of DeSeq be used for Single-cell RNA-seq?
Answer: Getting the overlap between two GTF files
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Recent Replies
Comment: ID unifiying across different datasets by zizigolu ★ 4.4k
Thanks a lot to be helpful I’m trying to build a complete `UniProtID` to `GeneSymbol` lookup table and I’m running into a wall. I’ve alrea…
Comment: strong appearing variant not found by haplotypecaller in -ERC mode and deepvaria by thomas.heigl.ibk ▴ 20
thanks for the quick reply. i posted the screenshot. gatk-internally, there is still the difference using -ERC or not, priot is getting …
Comment: strong appearing variant not found by haplotypecaller in -ERC mode and deepvaria by thomas.heigl.ibk ▴ 20
here the igv view. showing the histogram for all samples plus the reads for one: ![enter image description here][1] and expanded view of …
Comment: low quality data or file name swapping -- cellranger arc errors when processing by Arup Ghosh 3.5k
Check the read lengths to make sure the files are correct.
Comment: strong appearing variant not found by haplotypecaller in -ERC mode and deepvaria by Pierre Lindenbaum 166k
> Any suggestions or help you could share please, show us an IGV screenshot of the position GATK realign the reads locally, discards read…
Comment: Can i use orthofinder for small protein datasets and not full proteome? by alexandrakortsi • 0
By sequence. Thank you for your response!
Comment: Why did the QV value decrease significantly after using YAHS for HiC scaffolding by xinguok794 ▴ 10
Thank you for your reply! Unfortunately, despite running YAHS with `--no-contig-ec`, the QV value of the resulting FASTA file did not impro…
Comment: Subsetting before QC in Spatial Transcriptomics by Kent ▴ 30
Hi Kevin, Thanks for the detailed explanation. Due to the characteristics of the datasets, we initially used very lenient quality control…
Comment: Midpoint rooting IQTREE newick file moves node support around by Luca Arbore ▴ 10
Thank you very much Kevin, it worked!
Comment: ID unifiying across different datasets by GenoMax 154k
In this case the entry notes that this is likely the product of a pseudogene: https://www.uniprot.org/uniprotkb/Q5VTE0/entry and existence …
Comment: Comparison of different RNAseq data sets by DrSmad ▴ 10
Each lab contributes both control and LPS. Example, for cell line A_lab1 did and analysis on control and LPS-6h. Cell line B_lab2 did contr…
Comment: ID unifiying across different datasets by zizigolu ★ 4.4k
sorry, why some gene names are often lacking though the Uniprot ID is still valid (using biomart)?
Comment: snpEff: Unsupported structural variant types by shpak.max ▴ 70
Unfortunately, while it ran without a problem initially, when I checked the run screen today, I saw the following error message (and unlike…
Comment: ID unifiying across different datasets by GenoMax 154k
You can use the [**ID mapping tool**][1] from UniProt site (third ID did not map from the list above): From To P68104 ENSG0000015…
Answer: The geo samples is not having sentrix id and sentrix position. But this informat by yura.grabovska ▴ 890
Crosspost from related question: https://www.biostars.org/p/9616466/#9616534 ``` ##Using R, illuminaio from Bioconductor library(…
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