User: arronar

gravatar for arronar
arronar200
Reputation:
200
Status:
Trusted
Location:
Austria
Last seen:
5 months, 2 weeks ago
Joined:
5 years, 6 months ago
Email:
3************@gmail.com

Posts by arronar

<prev • 138 results • page 1 of 14 • next >
3
votes
0
answers
244
views
0
answers
Adding stack bars beneath a hierarchical clustering tree to describe the percentage of a meta-variable for the occurring clusters
... Hello. I've create a plot of a hierarchical clustering that looks like the following. ![enter image description here][1] As you can see there are three clusters created. So what I want to do further on, is to take the elements of each cluster and create a stack bar for each one by using a meta ...
plotting R visualization clustering written 6 months ago by arronar200
1
vote
0
answers
179
views
0
answers
Could an enrichment factor be calculated and make sense for metagenomic data?
... Hello. I was talking with a friend of mine last days analyzing a distribution graph that I show to him and looks like the following. ![enter image description here][1] To produce it, I just shorted all the samples of a specific run according to their abundance and got it. The question we had wa ...
enrichment factor metagenomics written 6 months ago by arronar200 • updated 6 months ago by ppurevgoo0
0
votes
1
answer
1.3k
views
1
answers
Comment: C: subgraph extraction based on the edges weights and graph connectivity
... I see... Sorry for letting this misconception. ...
written 17 months ago by arronar200
0
votes
1
answer
1.3k
views
1
answers
Comment: C: subgraph extraction based on the edges weights and graph connectivity
... What kind of inspection? Are you looking for graphs with a specific number of expanded nodes or anything different? ...
written 17 months ago by arronar200
0
votes
1
answer
1.3k
views
1
answers
Comment: C: subgraph extraction based on the edges weights and graph connectivity
... > One way of approaching the problem of finding a threshold > automatically could be to find the edges that if removed would > disconnect the graph (they are called bridges and I think there's an > algorithm for finding them). Isn't what the fourth paragraph is talking about? Also based ...
written 17 months ago by arronar200
0
votes
1
answer
1.3k
views
1
answers
Comment: C: subgraph extraction based on the edges weights and graph connectivity
... I don't think that the 4th paragraph is referring to thresholding the adjacency matrix. As I understood they propose to apply the threshold to the edge relevance scores. I have already implemented the k-walk algorithm and the results I got are in the form of the dataframe described in the OP. So now ...
written 17 months ago by arronar200
0
votes
1
answer
1.3k
views
1
answers
Comment: C: subgraph extraction based on the edges weights and graph connectivity
... Thank you for your answer but it confused me a little bit. Why did you choose as initial nodes the A,B and C? For some reason, you chose the induced network to be constructed by those nodes. As I understood from the literature,the induced graph should be the result of the whole process. Why choose o ...
written 17 months ago by arronar200
5
votes
1
answer
1.3k
views
1
answer
subgraph extraction based on the edges weights and graph connectivity
... Hi. Given a matrix that describes the edges' and their weights of a connected graph (see below) I want to extract a subgraph based on a threshold value **x** for the edges' weights. In literature, I read that one can search for the **maximal x**, such that the induced subgraph is connected. Since ...
R extraction subgraph weight graph written 17 months ago by arronar200 • updated 17 months ago by ejm32440
0
votes
1
answer
1.8k
views
1
answers
Comment: C: Is sampling for training and testing, necessary in random forest algorithms
... I'm keeping the ones with accuracy >65% and then the best one of them. I'm doing CV 50 times because I realized that each time, models have different accuracy. E.g the first could have 34% accuracy while the second 72%. If I don't use CV will the algorithm keep the best one? ...
written 20 months ago by arronar200
0
votes
1
answer
1.8k
views
1
answer
Is sampling for training and testing, necessary in random forest algorithms
... Hi. I'm trying to apply, random forest algorithm onto microarray results in order to get a list with the most significant predictors. So far I was executing the following pipeline. buildForest <- function (RF.data, storeDir) { acc = numeric() for(i in 1:50){ ...
microarray importance random forest written 21 months ago by arronar200 • updated 21 months ago by Jean-Karim Heriche21k

Latest awards to arronar

Great Question 17 months ago, created a question with more than 5,000 views. For Problem using a custom blast database in tblastx
Great Question 17 months ago, created a question with more than 5,000 views. For Venn diagrams for multiple (8) data lists in R
Popular Question 17 months ago, created a question with more than 1,000 views. For Another way to identify of the library type your data
Popular Question 17 months ago, created a question with more than 1,000 views. For "found spliced alignment without XS attribute" while running cuffmerge
Popular Question 17 months ago, created a question with more than 1,000 views. For Which tool/method to use for Raw data quality evaluation and filtering
Popular Question 17 months ago, created a question with more than 1,000 views. For Paired end reads DNA strains relationship.
Popular Question 17 months ago, created a question with more than 1,000 views. For SOL-GENOMICS: Find in which gene a specific region belongs to.
Popular Question 17 months ago, created a question with more than 1,000 views. For makeblastdb reports ambiguous nucleotides (how do I debug a fasta file?)
Popular Question 17 months ago, created a question with more than 1,000 views. For How to create 10GB blast database
Popular Question 17 months ago, created a question with more than 1,000 views. For Problem using a custom blast database in tblastx
Popular Question 17 months ago, created a question with more than 1,000 views. For NCBI blast PHP API choice
Popular Question 17 months ago, created a question with more than 1,000 views. For Run tblastx against SRA files
Popular Question 17 months ago, created a question with more than 1,000 views. For Find the best hit of heterologous protein in blastx results
Popular Question 17 months ago, created a question with more than 1,000 views. For Venn diagrams for multiple (8) data lists in R
Popular Question 17 months ago, created a question with more than 1,000 views. For Merge three assembled files (iterations) into one.
Popular Question 20 months ago, created a question with more than 1,000 views. For "found spliced alignment without XS attribute" while running cuffmerge
Popular Question 20 months ago, created a question with more than 1,000 views. For Which tool/method to use for Raw data quality evaluation and filtering
Popular Question 20 months ago, created a question with more than 1,000 views. For makeblastdb reports ambiguous nucleotides (how do I debug a fasta file?)
Popular Question 20 months ago, created a question with more than 1,000 views. For How to create 10GB blast database
Centurion 23 months ago, created 100 posts.
Popular Question 2.0 years ago, created a question with more than 1,000 views. For "found spliced alignment without XS attribute" while running cuffmerge
Popular Question 2.2 years ago, created a question with more than 1,000 views. For "found spliced alignment without XS attribute" while running cuffmerge
Popular Question 2.5 years ago, created a question with more than 1,000 views. For "found spliced alignment without XS attribute" while running cuffmerge
Popular Question 2.5 years ago, created a question with more than 1,000 views. For Which tool/method to use for Raw data quality evaluation and filtering
Popular Question 2.5 years ago, created a question with more than 1,000 views. For makeblastdb reports ambiguous nucleotides (how do I debug a fasta file?)

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 759 users visited in the last hour