Bioinformatics Answers

122,200 results • Page 625 of 2444

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cellranger single-cell RNA-seq alignment

updated 4.4 years ago by GenoMax 154k • written 4.4 years ago by PianoEntropy ▴ 70

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1.3k

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reference genome

updated 4.4 years ago by d-cameron ★ 3.0k • written 4.4 years ago by Elisa • 0

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1.5k

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sga de human genome novo low coverage assembly

4.4 years ago by Jess • 0

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9.5k

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samtools cram bam

updated 4.4 years ago by ATpoint 90k • written 4.4 years ago by nrk_02 ▴ 10

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2.2k

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vsearch usearch sequencing illumina amplicon

updated 2.7 years ago by Ram 45k • written 4.4 years ago by Adrien.andre • 0

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1.0k

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database String interaction network

updated 4.4 years ago by Jean-Karim Heriche 27k • written 4.4 years ago by suvethamagudapathi • 0

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1.7k

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Paralogy Orthology BLAST

4.4 years ago by PhyloW • 0

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1.1k

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diamond proteinortho

4.4 years ago by 圣彬 • 0

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1.2k

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mirna targets

updated 2.4 years ago by Ram 45k • written 4.4 years ago by Rafael Soler ★ 1.3k

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ML Statistics lasso regression

updated 4.4 years ago by Jean-Karim Heriche 27k • written 4.4 years ago by omicsnstuff • 0

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4.3k

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limma

updated 2.8 years ago by Ram 45k • written 4.4 years ago by fahim ▴ 20

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3.6k

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6 follow

rna-seq sequence next-gen snp

updated 4.1 years ago by ahmedakhokhar ▴ 150 • written 7.8 years ago by swordbreadjj • 0

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1.3k

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DEseq2 cbioportal EdgeR limma

updated 4.4 years ago by Nitin Narwade ★ 1.7k • written 4.4 years ago by DareDevil ★ 4.5k

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2.1k

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Batch script HT-Seq

updated 4.4 years ago by Nitin Narwade ★ 1.7k • written 4.4 years ago by Nai ▴ 50

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1.0k

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bam2fasta mapping extract_reads

4.4 years ago by MH85 ▴ 20

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2.1k

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GWAS minimac4 imputation

4.4 years ago by nhaus ▴ 420

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845

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NGSchool hackathon

updated 4.4 years ago by GenoMax 154k • written 4.4 years ago by German.M.Demidov ★ 3.0k

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1.8k

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next-gen software error

updated 4.4 years ago by Ram • 0 • written 5.3 years ago by kkatoibaraki ▴ 10

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1.9k

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Picard

updated 4.4 years ago by Pierre Lindenbaum 166k • written 4.4 years ago by Elisa • 0

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1.1k

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Trimmomatic HISAT

4.4 years ago by raavi21198 ▴ 20

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1.2k

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coverage capture sequencing bam

updated 4.4 years ago by Pierre Lindenbaum 166k • written 4.4 years ago by ccagg ▴ 60

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1.3k

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sequencing CNV depth uniformity coverage

updated 4.4 years ago by German.M.Demidov ★ 3.0k • written 4.4 years ago by CY ▴ 750

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1.2k

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GWAS plink linux unix

updated 4.4 years ago by ashishjayamohan • 0 • written 4.5 years ago by geno89 ▴ 20

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13k

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alignment sequence assembly

updated 4.4 years ago by GenoMax 154k • written 5.6 years ago by geethus2009 • 0

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1.0k

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HLA WES haplotype

4.4 years ago by kwanghoon ▴ 20

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2.1k

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fgsea

updated 4.4 years ago by Kevin Blighe ★ 90k • written 4.4 years ago by barix ▴ 20

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1.4k

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CPC2

updated 4.4 years ago by Nitin Narwade ★ 1.7k • written 4.4 years ago by 17318598206 ▴ 30

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1.6k

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Normalization tximeta RNA-Seq edgeR

updated 4.4 years ago by ATpoint 90k • written 4.4 years ago by skjw1029 ▴ 80

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3.3k

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protein fasta sequence

4.4 years ago by shahbaz.ahmed ▴ 40

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595

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bioconductor

updated 4.4 years ago by Ram 45k • written 4.4 years ago by shahbaz.ahmed ▴ 40

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1.3k

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exome family Genome

updated 4.4 years ago by ATpoint 90k • written 4.4 years ago by quentin54520 ▴ 120

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1.3k

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PPI interaction benchmark network R

4.4 years ago by cwwong13 ▴ 40

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1.0k

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python snakemake Linux git Netherlands

4.4 years ago by m.dehollander ▴ 50

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1.1k

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lncRNA mRNA RNA-seq

updated 4.4 years ago by grant.hovhannisyan ★ 2.6k • written 4.4 years ago by 17318598206 ▴ 30

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7.1k

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6 follow

bash linux awk R

updated 4.2 years ago by Rajesh ▴ 10 • written 6.2 years ago by Bioinfonext ▴ 480

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2.5k

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ecoli cells rosetta2 origami2 competent Novagen

updated 3.5 years ago by Sonia • 0 • written 4.4 years ago by mittu1602 ▴ 200

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1.3k

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database geneontology

4.4 years ago by EagleEye 7.6k

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1.7k

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stratification candidate population PCA gene

4.4 years ago by putty ▴ 40

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5.4k

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6 follow

hardware server

updated 4.4 years ago by Jean-Karim Heriche 27k • written 4.4 years ago by JustinZhang ▴ 140

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1.3k

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matrix HiC h5 txt

4.4 years ago by Oleczkaff • 0

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1.2k

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genotype SNP reference VCF imputation

updated 4.4 years ago by 4galaxy77 2.9k • written 4.4 years ago by Volka ▴ 180

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1.5k

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RNA-seq microRNA

4.4 years ago by Gene_MMP8 ▴ 250

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1.3k

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control dada2 quality qiime2

4.4 years ago by blur ▴ 280

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1.8k

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NLP PyTorch Text Mining Tensorflow

4.4 years ago by info ▴ 90

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1.7k

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R sum mean gene microarray

4.4 years ago by mohammedtoufiq91 ▴ 270

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1.8k

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assembly NGS Assembly Denovo

updated 4.4 years ago by Carambakaracho ★ 3.3k • written 4.4 years ago by askari.arezou94 ▴ 30

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1.9k

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SNP ID dbSNP_143

4.4 years ago by shamsurrahaman132 ▴ 10

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7.1k

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batch germline cnv

updated 4.4 years ago by rahul • 0 • written 5.3 years ago by mychung3265 • 0

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1.4k

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protein protein-structure protein-structure-prediction

updated 4.4 years ago by Mensur Dlakic ★ 30k • written 4.4 years ago by user366312 ▴ 20

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2.0k

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CNVkit

4.4 years ago by mphoeppner • 0

122,200 results • Page 625 of 2444

Recent Votes

Answer: Can i use orthofinder for small protein datasets and not full proteome?

Comment: Can i use orthofinder for small protein datasets and not full proteome?

Answer: Can i use orthofinder for small protein datasets and not full proteome?

Answer: Midpoint rooting IQTREE newick file moves node support around

Answer: Subsetting before QC in Spatial Transcriptomics

Answer: Feature Counts vs Salmon quantification

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Popular Question to Wilber0x ▴ 70

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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(…

Answer: Finding Sentrix ID in HM450K arrays by yura.grabovska ▴ 890

``` ##Using R, illuminaio from Bioconductor library(illuminaio) temp.idat <- readIDAT(file = "200379120087_R02C02_Grn.idat") tem…

Comment: Can i use orthofinder for small protein datasets and not full proteome? by michael.ante ★ 4.0k

Do you want to compare them by sequence or by function? For the later, you can use e.g. InterProScan, KoFamScan.

Answer: Can i use orthofinder for small protein datasets and not full proteome? by dthorbur ★ 3.2k

If you're just using the tool for clustering purposes, I think OrthoFinder might be a little clunky and would recommend using something lik…

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