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bioinformatics answers latest open jobs tutorials tags about faq community planet new post log in new post latest open news jobs tutorials forum tags planet users log in sign up about limit all time all time today this week this month this year 116 459 results page 1 of 2330 sort rank rank views votes replies 0 votes 2 replies 32 views assume yes as the answer to any prompts with bioconda docker container bioconda updated 3 minutes ago by juke34 8 5k written 35 minutes ago by njornet utrif 20 0 votes 0 replies 13 views 10x vdj tcr bcr bam to fastq tcr vdj bcr 10x 35 minutes ago by predeus starf 1 9k 0 votes 0 replies 12 views tutorial dna methylation sequencing techniques wgbs rrbs 30 minutes ago by novogene utrif 410 0 votes 1 reply 312 views how to add rowlinks rowtree in summarizedexperiment manually tree phylogenetic summarized microbiome updated 1 hour ago by akshay 0 written 19 months ago by muhammad 0 0 votes 0 replies 23 views deseq2 rna deseq2 seq 1 hour ago by rrehimi 0 0 votes 1 reply 62 views korean human genome reference file gwas reference imputation updated 1 hour ago by colindaven 6 3k written 2 hours ago by seogyun 0 1 vote 3 replies 84 views slurm submission problem indexing the reference genome is not done in star align rna seq linux star updated just now by dave carlson starf 1 7k written 2 hours ago by n_navy 0 0 votes 2 replies 92 views rna seq differential expression analysis regarding seq data normalization rna 1 hour ago by rrehimi 0 0 votes 5 replies 113 views how can i retrieve wheat lysine non acetylated sequences from the uniprot database uniprot updated 23 minutes ago by me utrif 750 written 2 hours ago by jacky 0 795 votes 167 replies 141k views 109 follow news the biostar handbook a bioinformatics e book for beginners training handbook updated 12 weeks ago by biostar 2 6k written 7 4 years ago by istvan albert 100k 0 votes 0 replies 37 views how to compare the quality of assemblies nextdenovo assembly hifiasm pacbio updated 1 hour ago by colindaven 6 3k written 2 hours ago by kirillkirilenko utrif 20 0 votes 0 replies 37 views how can i obtain the tissue or sample name alongside the tau score in tspex tau score tspex 2 hours ago by bioinfo223 utrif 10 0 votes 0 replies 46 views how to root an unrooted tree with a known root tree phylogenetics rooting r 3 hours ago by p 0 0 votes 0 replies 52 views issues with snpeff assuming circular chromosomes in eukaryotic genome analysis snpeff 5 hours ago by ekirsch 0 0 votes 0 replies 78 views load a full gff3 into annotation track using arrow apollo arrow python apollo apollo 9 hours ago by renan igor 0 1 vote 1 reply 146 views pediococcus acidilactici sequence analysis blast gene ontology updated 6 hours ago by ram 43k written 11 hours ago by anasjamshed utrif 120 2 votes 1 reply 520 views what is the normalization status of metabric data metabric normalization microarray cbioportal updated 10 hours ago by etiennedanis utrif 10 written 19 months ago by daredevil starf 4 3k 0 votes 0 replies 72 views filter the most significant ligand and receptors in netvisual_bubble in cell chat cellchat 11 hours ago by synat keam utrif 100 0 votes 1 reply 160 views assembly using ccs clr ccs_clr sequences together assembly updated 13 hours ago by genomax 141k written 14 hours ago by ycts 0 1 vote 3 replies 355 views deg analysis of rna seq data across multiple tissues and two conditions rna seq edger degs deseq2 updated 15 hours ago by swbarnes2 14k written 17 hours ago by bioinfguru starf 1 7k 1 vote 1 reply 191 views inconsistency in snp detection pipelines for multi sample analysis vcf bam bcf snps updated 16 hours ago by lchart 3 9k written 17 hours ago by george utrif 10 0 votes 0 replies 92 views problem with mirdeep2 and randfold output mirdeep2 randfold updated 16 hours ago by ram 43k written 16 hours ago by otieno43 utrif 20 0 votes 2 replies 204 views per base sequence content failed miserably fastqc sequence trimmomatic ngs assembly 2 hours ago by kai xin 0 1 vote 1 reply 155 views retrieve a coverage for each transcript rna seq updated 18 hours ago by ram 43k written 18 hours ago by jammydodger123456 utrif 40 0 votes 1 reply 274 views pruning phylogenetic trees and bootstrap values phylogenetics bootstrap updated 18 hours ago by klaus s utrif 150 written 6 days ago by zeng hao utrif 40 0 votes 2 replies 244 views how can i solve this error metal 7 hours ago by 22211020193 0 0 votes 0 replies 92 views struggling to lift genome builds plink liftover gwas updated 18 hours ago by genomax 141k written 18 hours ago by srimmer 0 1 vote 2 replies 186 views can i readmap short reads to rdna references rdna assembly updated 17 hours ago by ram 43k written 19 hours ago by aniigodwinn 0 0 votes 2 replies 196 views sheep reference genome remapping coordinates reference remap sheep coordinates genome updated 19 hours ago by colindaven 6 3k written 1 day ago by valentinatsar 0 1 vote 3 replies 198 views editing human reference genome by adding a cds gff agat transcriptome updated 19 hours ago by michael 54k written 20 hours ago by ldt utrif 330 0 votes 8 replies 371 views questions about a bug when transferring cram file to bam file sequence samtools bcftools updated 17 hours ago by pierre lindenbaum 161k written 21 hours ago by me 0 0 votes 1 reply 209 views differential gene expression analysis when not all samples have an untreated counterpart differential expression edger updated 21 hours ago by gordon smyth starf 7 0k written 8 days ago by nhaus utrif 300 0 votes 0 replies 155 views looking for an explanation as to what the peak score is from homer not finding any answers on biostars yet homer atac seq 21 hours ago by ronin 0 4 votes 2 replies 1 7k views how to convert sam bam file to gtf gff file gtf sam bam gff minimap2 updated 23 hours ago by dr animo utrif 130 written 11 months ago by bioinfobee 0 2 votes 6 replies 493 views removing duplicates duplicates ont minimap2 2 hours ago by quentinperriere 0 0 votes 1 reply 139 views annotating a dataset with gnomad v4 using hail python sequencing hail exome annotation updated 23 hours ago by dka utrif 40 written 1 day ago by james melhorn 0 0 votes 3 replies 204 views biomart error for different r version biomart r updated 21 hours ago by mike smith starf 2 0k written 1 day ago by manaswwm utrif 490 0 votes 1 reply 127 views freyja plot error freyja updated 19 hours ago by ram 43k written 1 day ago by adyasha 0 1 vote 2 replies 143 views interpretation of combined p values rna microarray meta analysis metaanalysis r microarray dexma combinedp 1 day ago by hagl utrif 10 0 votes 0 replies 91 views biom format can contain tabular data biom phyloseq biomformat r 1 day ago by chemokine 1 utrif 10 0 votes 4 replies 344 views how to reduce the variation of cibersortx results cibersortx deconcolution 4 hours ago by feather w 0 0 votes 1 reply 154 views job consultant to update a snakemake workflow with the new kubernetes executor plugin for snakemake 8 kubernetes devops executor aws snakemake updated 1 day ago by michael 54k written 1 day ago by jonrkarr utrif 100 0 votes 2 replies 160 views bedmethyl file format bedmethyl methylation updated 23 hours ago by genomax 141k written 1 day ago by njornet utrif 20 0 votes 0 replies 115 views sequence table for dada2 chimera filtering otu sequencetable dada2 1 day ago by ali 0 2 votes 4 replies 248 views snpeff annotates coding duplication as intronic snpeff 1 day ago by kirill zaslavsky 0 0 votes 2 replies 186 views calculating percentage of cells proliferating in single cell rna seq data statistics scrna seq proliferation 23 hours ago by mropri utrif 150 0 votes 1 reply 209 views how to get the reference panel for ukbb ukbb gwas clump updated 18 hours ago by bk11 starf 2 3k written 1 day ago by 航太郎 0 5 votes 4 replies 2 8k views genefu for pam50 prediction rna seq breast cancer subtyping updated 1 day ago by hamarillo utrif 70 written 5 6 years ago by silviajserrano utrif 50 3 votes 10 replies 558 views piping samtools to r r ngs bash samtools 1 day ago by joe utrif 500 2 votes 2 replies 195 views how to filter columns in a raw sparse matrix in r matrix r updated 1 day ago by bk11 starf 2 3k written 1 day ago by bgbs 0 116 459 results page 1 of 2330 recent votes answer pediococcus acidilactici sequence analysis c how to convert 10x single nuclear rna seq bam file to fastq answer vdj reconstitution from 3 10x genomics platforms answer indexing the reference genome is not done in star answer long read salmon transcript abundance what is a lane in next generation sequencing context can i liftover hs37d5 to hg38 using hg19tohg38 chain file recent locations all france just now france nantes institut du thorax inserm umr1087 just now spain 3 minutes ago united kingdom 3 minutes ago india 4 minutes ago estonia 5 minutes ago hong kong 7 minutes ago recent awards all student to manaswiniparija3 utrif 40 popular question to tomas4482 utrif 390 popular question to vinayjrao utrif 250 scholar to scooter utrif 280 popular question to yingying 0 popular question to anasjamshed utrif 120 popular question to synat keam utrif 100 recent replies comment slurm submission problem indexing the reference genome is not done in star by dave carlson starf 1 7k you re allocating 4 compute nodes sbatch n 4 but star can t actually make use of more than 1 compute node you can increase the num answer assume yes as the answer to any prompts with bioconda by dave carlson starf 1 7k conda install y bioconda packagex conda forge packagey should do what you re looking for comment supergnova stuck in tutorial by murat 0 hi genomax thank you for your advice i sent an email to them and have already opened an issue on github let see if there is any other so comment how can i retrieve wheat lysine non acetylated sequences from the uniprot databa by me utrif 750 you can t the data does not exist uniprot only annotates where a lysine is know to be acetylated there is no way that uniprot can know w comment how can i retrieve wheat lysine non acetylated sequences from the uniprot databa by jacky 0 yes that s what i meant comment how can i retrieve wheat lysine non acetylated sequences from the uniprot databa by jacky 0 i m sorry i didn t explain it clearly below are my operational steps i enter triticum aestivum in the search box and perform a search comment indexing the reference genome is not done in star by n_navy 0 i add these parameters sbatch n 4 sbatch tasks 1 sbatch c 4 sbatch time 24 00 00 but it keeps giving error comment rna seq differential expression analysis by rrehimi 0 thanks could you please explain the deseq2 method using galaxy step by step input files answer korean reference file by colindaven 6 3k is is this one koref there might be multiple versions https www ncbi nlm nih gov bioproject prjna294231 if it is then take that comment how can i retrieve wheat lysine non acetylated sequences from the uniprot databa by me utrif 750 the question is not quite clear are you asking for wheat proteins in uniprotkb which contain a lysine amino acid where those lysine are comment rna seq differential expression analysis by seta starf 1 9k you should provide row count without normalization for doing deg analysis by relevant tools such as edger or deseq comment gsea analysis in r by sudip 0 thank you i have another question is there a way to get the gene list under setsize from the output that you gave as an example comment per base sequence content failed miserably by kai xin 0 hi i have added the fastqc plots untrimmed and trimmed the sample was from anaerobes enriched from wastewater treatment plant and this comment how can i retrieve wheat lysine non acetylated sequences from the uniprot databa by pierre lindenbaum 161k lysine non acetylated sequences what does it look like in uniprot give us an example with a uniprot identifier answer indexing the reference genome is not done in star by pierre lindenbaum 161k cpu time limit exceeded your command is 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