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122,198 results • Page 634 of 2444
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Mitochondrial localization signal for CRISPR/CAS
CRISPRcas
4.4 years ago by chiti.agarwal ▴ 10
1
vote
0
replies
751
views
Pattern Search function in MicrobiomeAnalyst
MicrobiomeAnalyst metagenomics
4.4 years ago by GlycineMax ▴ 10
3
votes
4
replies
4.4k
views
Which R function can be used for intersection of genomic coordinates from one file and check if the coordinates are within a specific range?
coordinates R Genomic
4.4 years ago by bioinfo89 ▴ 60
1
vote
2
replies
862
views
FASTQC per base sequence quality
FASTQC
4.4 years ago by BIN • 0
0
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0
replies
814
views
Intersecting multiple bed files with reporting the number of base pairs of overlap between the features - Pybedtools
Pybedtools Coordinates Python Bedtools
4.4 years ago by BioICoder ▴ 40
0
votes
2
replies
1.0k
views
De Novo Assembly from Oligos
assembly denovo
updated 4.4 years ago by ★ 1.5k • written 4.4 years ago by • 0
1
vote
3
replies
2.3k
views
Job: Bioinformaticist or computational biologist opportunity at Pattern Ag (CA, USA) in metagenomics
metagenomics python development NGS
updated 4.4 years ago by 45k • written 4.4 years ago by • 0
0
votes
3
replies
1.3k
views
For Loop for .fa files in folder
windows BLAST
updated 2.4 years ago by 45k • written 4.4 years ago by • 0
2
votes
2
replies
1.5k
views
Gene Regulatory Networks on Single Cell RNAseq Datasets
GRN Transcription scRNAseq ChIPseq Factors
4.4 years ago by fouerghi20 ▴ 90
1
vote
2
replies
1.2k
views
Blast Database on External Hard Disk
Standalone NCBI BLAST Local
updated 4.4 years ago by 45k • written 4.4 years ago by • 0
4
votes
12
replies
7.0k
views
How to Speed Up BLASTp
blastp linux-cluster BLAST nr-database
updated 4.4 years ago by ★ 30k • written 4.4 years ago by • 0
0
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0
replies
3.4k
views
2: Position guide is perpendicular to the intended axis. Did you mean to specify a different guide `position`?
EnhancedVolcano
4.4 years ago by Eko • 0
0
votes
5
replies
1.5k
views
how can i find expressions of miRNAs using TCGA
mirna tcga
updated 3.8 years ago by 154k • written 4.4 years ago by ▴ 10
1
vote
3
replies
1.5k
views
Demultiplexing reads from three libraries (non, single and dual indices)
demultiplexing bcl2fastq Illumina
updated 4.4 years ago by 154k • written 4.4 years ago by • 0
1
vote
1
reply
829
views
What is the most convenient way to interact with ncbi?
databases nsbi
updated 4.4 years ago by 154k • written 4.4 years ago by ▴ 50
0
votes
0
replies
896
views
News: Webinar on BRENDA database - comprehensive enzyme information system
enzyme protein database
updated 4.4 years ago by 154k • written 4.4 years ago by ▴ 470
3
votes
4
replies
1.6k
views
Mapping reads to a very small reference
bowtie2 mapping
updated 4.4 years ago by ★ 1.3k • written 4.4 years ago by • 0
0
votes
2
replies
1.7k
views
Exclude non shared SNPs from two datasets with PLINK
Human SNPs Genome Shared PLINK Sites
4.4 years ago by GIACOMO FRANCESCO • 0
0
votes
1
reply
879
views
How to find conserved enhancers between human cell lines?
chip enhancer h3k27ac
updated 4.4 years ago by 22k • written 4.4 years ago by ▴ 10
6
votes
2
replies
1.0k
views
Differentially expressed genes and their promoter region accessiblity
gene regulation
updated 4.4 years ago by 22k • written 4.4 years ago by ▴ 20
1
vote
0
replies
572
views
plink vs MBMDR results :
Epistasis MBMDR plink
4.4 years ago by Mollie ▴ 10
4
votes
22
replies
12k
views
samtools coverage usage
NGS
updated 4.4 years ago by ★ 1.3k • written 4.4 years ago by ▴ 20
0
votes
0
replies
785
views
How to calculate RMSD and binding energy from the already docked ligand-receptor
python protein docking pdb structure
4.4 years ago by gundalav ▴ 380
0
votes
0
replies
712
views
Create a genomic portal web app
cbioportal genome shinyapp web server
updated 4.4 years ago by 90k • written 4.4 years ago by • 0
1
vote
8
replies
3.4k
views
Protein Structure drawing on graph paper
Protein
updated 3.0 years ago by 45k • written 4.4 years ago by ▴ 140
5
votes
3
replies
2.4k
views
Download multiple SRA samples and convert into fasta format at once
fasta SRA fastq-dump prefetch
4.4 years ago by twangxxx • 0
7
votes
4
replies
1.9k
views
Should I remove an overrepresented sequence from one Fastq file from my RNA Seq data?
fastqc overrepresented RNA-Seq sequences
updated 4.4 years ago by ★ 2.9k • written 4.4 years ago by • 0
2
votes
5
replies
1.9k
views
Is it appropriate to resize peak before ATAC/ChIP-Seq differential peak analysis
ATAC
updated 4.4 years ago by ★ 1.3k • written 4.4 years ago by ▴ 30
1
vote
2
replies
984
views
is there a proper way to choose clusters in hierarchical clustering?
Hierarchical-clustering dendogram R
updated 4.4 years ago by 3.3k • written 4.4 years ago by ▴ 140
0
votes
0
replies
575
views
microanalysis of zebrafish genome
genomics
4.4 years ago by aranyak111 • 0
0
votes
1
reply
1.6k
views
CNVkit methods and parameters
WGS CNV analysis
updated 4.4 years ago by ▴ 60 • written 4.5 years ago by ▴ 20
0
votes
0
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862
views
cnvkit genemetrics --ttest
ffpe oncology cnv cnvkit cna
updated 4.4 years ago by 9.8k • written 4.4 years ago by ▴ 60
0
votes
0
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713
views
Correct way to write the names in the "product" field of a GTF file
gtf rnaseq annotation
4.4 years ago by arturo.marin ▴ 20
2
votes
2
replies
1.5k
views
How to convert ONT longread or illumina fastq to fasta file
denovo assembly genome
updated 4.4 years ago by ★ 30k • written 4.4 years ago by ▴ 10
1
vote
1
reply
1.5k
views
BGENIE vs REGENIE
bgenie regenie
updated 4.4 years ago by ▴ 40 • written 4.7 years ago by ▴ 20
2
votes
3
replies
2.1k
views
Polishing PACBIO corrected assembly using ONT and ILLUMINA data (.fastq)
fasta Nanopore long-read fastq
updated 19 months ago by 45k • written 4.4 years ago by ▴ 10
0
votes
0
replies
648
views
De novo assembly Sacffolding tool for long reads
genome scaffold
4.4 years ago by K ▴ 10
2
votes
2
replies
1.2k
views
How do I call compound hetrozygosity from multiple trios cohort?
ped gatk trio heterozygosity compound vcf
4.4 years ago by DareDevil ★ 4.5k
5
votes
6
replies
2.9k
views
How to check which genes affect a continuous phenotype
multiple-comparisons multiple-regression microarrays regression
4.1 years ago by Aspire ▴ 390
1
vote
7
replies
2.6k
views
Statistics of amino acid usage of multiple aligned sequences?
alignment
updated 4.4 years ago by 22k • written 6.7 years ago by ▴ 110
4
votes
2
replies
1.7k
views
Validate input file as BED file
R BED
updated 4.4 years ago by ★ 1.3k • written 4.4 years ago by ▴ 40
0
votes
2
replies
962
views
Genotype
genetic
updated 4.4 years ago by 45k • written 4.4 years ago by • 0
1
vote
2
replies
3.7k
views
problem for installing packages
ReactomePA
4.4 years ago by fahim ▴ 20
3
votes
4
replies
5.6k
views
Error in ComBat function: Error in dat[, batch == batch_level] : (subscript) logical subscript too long
Batch-effect microarray R
updated 19 months ago by 45k • written 4.4 years ago by ▴ 80
0
votes
0
replies
705
views
Counting number of NSMs from WES variants
variants VCF WES SNPEFF
4.4 years ago by tomer9w • 0
2
votes
2
replies
1.6k
views
Get read id's from .sam file
sam
updated 4.4 years ago by 166k • written 4.4 years ago by ▴ 80
1
vote
0
replies
713
views
functional annotation and gene quantification
functional shotgun annotation
updated 4.4 years ago by 45k • written 4.4 years ago by ▴ 10
0
votes
0
replies
589
views
SNP tissue expression
R GTEx
updated 4.4 years ago by 154k • written 4.4 years ago by ▴ 10
3
votes
1
reply
1.3k
views
What is the fastest way to create an online server that allows searching through a table
database searchable online query
updated 4.4 years ago by ★ 2.2k • written 4.4 years ago by ▴ 100
0
votes
0
replies
884
views
How to determine protein subsites?
Protein 3D Pymol
updated 4.4 years ago by 45k • written 4.4 years ago by ▴ 10
122,198 results • Page 634 of 2444
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Answer: Midpoint rooting IQTREE newick file moves node support around
Answer: Subsetting before QC in Spatial Transcriptomics
Answer: Feature Counts vs Salmon quantification
Comment: Feature Counts vs Salmon quantification
Answer: Can i use orthofinder for small protein datasets and not full proteome?
Comment: Comparison of different RNAseq data sets
Comment: ID unifiying across different datasets
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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…
Comment: ID unifiying across different datasets by zizigolu ★ 4.4k
Thank you; The problem is let's say in the protein ID column I see `Q5VTE0;P68104;Q05639` here I am sure I should get which `ENSG` for eac…
Comment: How to improving 2-Nucleotide RNA-seq Mapping Accuracy by 2411110159 • 0
Since we do not have real data yet, I tried to simulate this using strand-specific RNA bisulfite-seq reads (C to T). Read1 corresponds to t…
Comment: How to Use Biostars, Part-I: Questions, Answers, Comments and Replies by 2411110159 • 0
Very helpful!
Comment: direct RNA long-reads alignment against reference genome by frarodmar17 • 0
Okay, thanks! I removed reads.fa and I used the index created with minimap2 in .mmi format. Is this correct?
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