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Showing top results for tag: function • reset
0
votes
0
replies
304
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KEGG module and abundance of its KEGG Orthologs for functioning
function kegg abundance
11 months ago by Jonathan Yoou ▴ 60
4
votes
6
replies
6.6k
views
Interpro Enrichment - Any Organism
enrichment function
updated 15 months ago by 44k • written 12.8 years ago by ▴ 870
7
votes
13
replies
2.1k
views
Problems with the input (from TPM) to run the WGCNA
gsub WGCNA function
updated 18 months ago by 101k • written 18 months ago by • 0
2
votes
2
replies
1.1k
views
How To Choose Metagenomics Function annotation : Reads-based v.s. Contigs-based
metagenomics function annotation reads contigs
18 months ago by JyiYeung • 0
0
votes
0
replies
408
views
Functional differences in bacterial genomes within a genus
genome bacteria pathway function
18 months ago by lstn • 0
0
votes
0
replies
504
views
homology and protein function inference
homology evolution function
2.3 years ago by timothy.kirkwood ▴ 140
6
votes
3
replies
1.1k
views
Top/best RNAseq workflow including anlaysis results for function annotation
RNA-Seq annotation workflow function
updated 2.3 years ago by ▴ 60 • written 2.3 years ago by ▴ 10
3
votes
4
replies
972
views
Divide the dataframe based on conditions in R
R dividing data-frame function
2.3 years ago by KABILAN ▴ 100
0
votes
3
replies
664
views
How to search and identify the function of DEGs
function functional annoatation DEGs
updated 2.4 years ago by ▴ 810 • written 2.4 years ago by • 0
2
votes
2
replies
722
views
pfam functional redundancy
redundancy protein pfam domain function
2.4 years ago by timothy.kirkwood ▴ 140
0
votes
1
reply
500
views
Limitations with whole genome co-expression network analysis
Co-expression WGCNA function
updated 2.6 years ago by ▴ 30 • written 2.6 years ago by ▴ 10
0
votes
0
replies
352
views
dbSNP Filtering by function class
function plink filter dbSNP
2.6 years ago by BiostarNewbie • 0
5
votes
5
replies
2.9k
views
How can I merge GFF files together to produce a file with gene functions from both?
merge protein gff function
updated 2.7 years ago by ▴ 30 • written 2.7 years ago by ▴ 20
0
votes
2
replies
635
views
Single nucleotide variant
SNV of loss function
2.7 years ago by heureuse • 0
0
votes
1
reply
800
views
How to identify different protein domains using HHpred
HHpred structure protein uniprot function
updated 2.8 years ago by ★ 4.0k • written 2.8 years ago by • 0
0
votes
1
reply
707
views
gene function
function biomart annotation clustering functional gene
updated 2.8 years ago by 11k • written 2.8 years ago by ▴ 50
0
votes
0
replies
424
views
functional annotation and clustering
function biomart annotation clustering functional gene
2.9 years ago by biology_inform ▴ 50
2
votes
6
replies
1.7k
views
How to iterate over all elements of a dataframe and make changes based on a function
function R datafram
2.9 years ago by maria2019 ▴ 250
0
votes
0
replies
471
views
what regression model does step() in R use
lm function R model stepwise
3.0 years ago by RNAseqer ▴ 270
2
votes
7
replies
1.5k
views
Gene ontology from annotation
function non-model animal GO gene
3.0 years ago by jaqx008 ▴ 110
0
votes
2
replies
903
views
Creating column that groups data from another columns
R statistics function data
3.0 years ago by Bioinfo ▴ 20
7
votes
13
replies
2.2k
views
6 follow
Data Manipulation
Excel Analysis R Function Data
3.1 years ago by science03 ▴ 50
0
votes
0
replies
401
views
how to perform independent test by R ranger() function
function ranger R
3.2 years ago by dao • 0
7
votes
5
replies
1.3k
views
Orthology, sequence similarity, and conservation of function
homology function similarity prediction sequence orthology
3.2 years ago by Dunois ★ 2.7k
3
votes
11
replies
2.0k
views
How to associate a gene to one general function?
gene function
3.4 years ago by Francois Piumi ▴ 70
0
votes
0
replies
555
views
Error in cut edge program in MATLAB
function programming
3.6 years ago by Abhinav • 0
4
votes
11
replies
1.7k
views
How to write it in R language?
R function programming coding
updated 3.7 years ago by ▴ 150 • written 3.7 years ago by ▴ 80
4
votes
3
replies
892
views
multi species_gene name to description
gene function transcriptome
updated 4.2 years ago by 146k • written 4.2 years ago by ▴ 20
1
vote
3
replies
2.6k
views
How to feed the sequence dictionary created with multifasta file into python function
python multi-fasta function
updated 4.5 years ago by ▴ 630 • written 4.5 years ago by ▴ 100
0
votes
3
replies
1.6k
views
Code for multiclass differential gene expression analysis
deg ttest function
4.7 years ago by orzech_mag ▴ 230
2
votes
3
replies
1.4k
views
Functional Metagenomic Analysis Tools
metagenomics protein microbiome function
updated 4.8 years ago by ▴ 330 • written 5.6 years ago by ▴ 70
0
votes
1
reply
1.8k
views
Functional categorization of genes
gene function
updated 5.8 years ago by ▴ 10 • written 6.8 years ago by ▴ 710
0
votes
2
replies
1.0k
views
Identifying Certain Genes in a Bacterial Genome
genome gene function
updated 5.9 years ago by 35k • written 5.9 years ago by • 0
3
votes
5
replies
2.2k
views
Have several promoter sequences and wanna find out function of conserved motifs...
meme motif function
updated 6.0 years ago by ★ 18k • written 6.0 years ago by • 0
28
votes
4
replies
13k
views
Tools Of Choice For Functional Annotation Of Genes And Proteins
annotation function
updated 2.6 years ago by 44k • written 13.2 years ago by ▴ 290
0
votes
1
reply
947
views
Function that determine if value is empty and return NA if not return the value?
php function NA
6.5 years ago by nemo ▴ 40
1
vote
2
replies
1.2k
views
compare to list of genes about its function in growth and other pathway with visualization
gene function grwoth visualization comparision
updated 6.7 years ago by ▴ 60 • written 6.7 years ago by ▴ 50
0
votes
3
replies
1.4k
views
Gene type identification
database function gene
6.9 years ago by popayekid55 ▴ 110
0
votes
2
replies
1.3k
views
calling objects from an embedded function
function nested-function object
7.0 years ago by Assa Yeroslaviz ★ 1.9k
2
votes
5
replies
1.6k
views
Determine gene function for soyBean transcript
function transcript RNA-Seq
updated 7.1 years ago by ★ 1.2k • written 7.1 years ago by ▴ 70
3
votes
5
replies
2.9k
views
How to test activation/inactivation of pathways?
pathway function
updated 7.6 years ago by ▴ 180 • written 7.6 years ago by ★ 1.2k
5
votes
8
replies
3.8k
views
Looking For An Easy To Use Tool To Analyse A Gene Set For Enrichment Of Immunological Function
function analysis kegg
7.7 years ago by confusedious ▴ 490
3
votes
8
replies
2.4k
views
Prediction of peptide function, How to do?
prediction peptide function software
updated 7.7 years ago by ★ 2.8k • written 7.7 years ago by ★ 1.3k
3
votes
2
replies
1.8k
views
How to facilitate the performance of overlap for GRanges objects (verifiable example is given)?
r GRanges overlap performance function
8.3 years ago by Jurat Shahidin ▴ 100
4
votes
3
replies
1.9k
views
getting gene functions for a group of genes
function cancer
8.4 years ago by zizigolu ★ 4.3k
1
vote
1
reply
1.9k
views
Analysis of list "interesting" proteins from protein array
proteinArray protein function
updated 8.5 years ago by 27k • written 8.5 years ago by ▴ 290
3
votes
7
replies
4.4k
views
Finding Information About Hypothetical Genes
gene function genome sequence
updated 8.6 years ago by 20 • written 12.4 years ago by ▴ 850
0
votes
2
replies
1.7k
views
How to find out change in function of a gene?
gene evolution function
updated 2.1 years ago by 44k • written 9.1 years ago by ▴ 20
3
votes
2
replies
2.7k
views
State Of The Art Of Prediction Of Protein Functionality After Ligand Binding
prediction protein function
updated 9.2 years ago by 20 • written 12.1 years ago by ★ 1.6k
0
votes
2
replies
3.6k
views
Difference between KEGG BlastKOALA and Annotate Sequence
kegg function pathway blast annotate
updated 9.9 years ago by 20 • written 9.9 years ago by ▴ 130
50 results • Page 1 of 1
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Answer: Compare Two Sigle-cell Sample for Differentially Expressed Genes (DEGs). How? by ATpoint 85k
> But How could I know if the difference comes from sample instead of sequencing runs or cohort-driven batch effect? You cannot. It's pe…
Comment: Comparing GSEA mutant data to wild type by conmul • 0
Sorry that it was unclear in the post. The data is all CRISPR gene effect scores from DepMap. The 'significant genes' as mentioned in the p…
Comment: How to determine whether it is 10x data by king • 0
Thank you for your answer, it's very inspiring.
Comment: Inquiry about depth of coverage and copy number variation by Chen • 0
Thanks Pierre, I was actually thinking about the duplicate PCR reads and didn't explain it properly. I have found a post mentioning that qu…
Comment: Can a read be aligned more than once? by GenoMax 146k
Yes a read can be aligned more than once (I don't specifically know about gam/gaf). It would be called a "multi-mapping" read. You could im…
Comment: Statistical test to be used for dataset by allingt • 0
The choice of test depends on the types of variables involved and the hypothesis you have. But most importantly on the question you want am…
Comment: dittoHeatmap; adding column labels on the heatmap by jared.andrews07 ★ 18k
I'd consider making a [block annotation](https://jokergoo.github.io/ComplexHeatmap-reference/book/heatmap-annotations.html#block-annotation…
Comment: Comparing GSEA mutant data to wild type by allingt • 0
What do you mean by "significant gene"? How did you perform GSEA and on how did you rank your genes for it? From guesswork I might initiall…
Comment: Genes of Interest in a Multi-Tissue Analysis by allingt • 0
The DESeq2 manual tells us that the object class of vst() output is a subclass of RangedSummarizedExperiment. I suspect the methods applica…
Comment: WGCNA: Why are my brown, yellow, and other modules not visible in the gene dendr by allingt • 0
Did you perform blockwise module detection by any chance? Are your results object's contents sorted in blocks?
Comment: Why does WGCNA use weighted correlation instead of Pearson correlation? by allingt • 0
The WGCNA implementation by Langfelder and Horvath provides various correlation methods to create the initial correlation matrix. I don't t…
Comment: dittoHeatmap; adding column labels on the heatmap by Varun Gupta ★ 1.3k
any idea, how can I display the labels Pre and POst on the top of the heatmap? I am looking at complexheatmap package as to how they displa…
Comment: How can I determine the p-value of genes within each identified module in WGCNA? by allingt • 0
What p-value do you mean? When and how did you calculate it?
Answer: What is a genomic range that would almost always get decent WGS coverage but is by i.sudbery 20k
What about some of the well known enhancer regions, the globin locus LCR? Likely to be highly sequenceable, and yet not on exome panels.
Answer: Using NumReads column of quants.genes.sf file to build DESeq2 input by i.sudbery 20k
One of the improvements that the using the `salmon` -> `tximport` -> `DESeq2` pipeline, over just a `counts`->`DESeq2` pipeline is the abil…
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