User: Sheila

gravatar for Sheila
Sheila250
Reputation:
250
Status:
Trusted
Location:
Germany
Last seen:
3 years, 5 months ago
Joined:
8 years, 4 months ago
Email:
f***********@gmail.com

Posts by Sheila

<prev • 24 results • page 1 of 3 • next >
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Comment: C: How Do I Draw A Heatmap In R With Both A Color Key And Multiple Color Side Bars?
... How do I turn off the clustering feature? I don't want to cluster my data just only plot!! ...
written 3.7 years ago by Sheila250 • updated 3.7 years ago by Obi Griffith18k
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Answer: A: Machine Learning For Cancer Classification - Part 4 - Plotting A Kaplan-Meier Cu
... In this code surv_data_lin[,"RF_Group2"]=as.numeric(surv_data_lin[,"RF_Group2"]) should it be as.factor rather then as.numeric ?  surv_data_lin[,"RF_Group2"]=as.factor(surv_data_lin[,"RF_Group2"]) By reading this "we will take case predictions ... divide into low, intermediate and high risk gr ...
written 4.5 years ago by Sheila250
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PAMR Error in 1:ncol(data$x) : argument of length 0
... I am trying to reproduce the PAMR results following the link http://statweb.stanford.edu/~tibs/PAM/Rdist/doc/readme.html > library(pamr) > data(khan) > khan.train <- pamr.train(khan) Error in 1:ncol(data$x) : argument of length 0 Anyone know what is the cause of this error?  A pointer ...
software error R pamr written 5.5 years ago by Sheila250 • updated 13 months ago by Biostar ♦♦ 20
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Comment: C: How to keep my data and analysis up to date across new genome releases
... Thanks. I am interested in gz files or any flat file data. Is there any tool/method of just only downloading changes! ...
written 5.8 years ago by Sheila250
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Comment: C: binding close to gene
... Thanks. If possible please post R code. ...
written 5.8 years ago by Sheila250
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binding close to gene
... Given the Chip-seq data (http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE46992 ), how to find that if the transcription factor considered in the study have binding sites close to a specific gene of interest (COX-1 in this case)?  Please suggest easy to use tool or web service !!   ...
chip-seq written 5.8 years ago by Sheila250 • updated 5.8 years ago by Ming Tang2.5k
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How to keep my data and analysis up to date across new genome releases
... What are the best methods to maintain up-to-date biological database? I used a gnome from NCBI which was a large gz file. Now there is a newer release available in gz format. Every-time there is a change in database I have to download it completely and reanalysis the data. Same is the problem with  ...
ncbi uniprotkb database pdb written 5.8 years ago by Sheila250 • updated 5.8 years ago by Elisabeth Gasteiger1.7k
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Answer: A: How To Predict Or Calculate The Physical Distance Of Given Amino Acids
... A simple method is to extract all coordinate from PDB file for 'CA' atom and then calculate the euclidean distance between them. If you use python here is simple code which can help you as starting point But I will not recommend to use it for analysis as it is not optimized and PDB files have many ...
written 7.4 years ago by Sheila250
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Comment: C: Running Pymol From Python Script
... I guess pymol provided by Linux package manager have some bug or feature missing. Removing old and installed new Pymol from http://sourceforge.net/projects/pymol/ and Now it works. Thanks @João Rodrigues and @Niek De Klein ...
written 7.9 years ago by Sheila250
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Comment: C: Running Pymol From Python Script
... I did both but still no PNG :( if someone have a working script which makes PNG from a PDB please post ...
written 7.9 years ago by Sheila250

Latest awards to Sheila

Epic Question 3.6 years ago, created a question with more than 10,000 views. For Running Pymol From Python Script
Popular Question 3.6 years ago, created a question with more than 1,000 views. For Surface Amino-Acid From Sequence Only
Popular Question 3.6 years ago, created a question with more than 1,000 views. For All Children, Grand Children Of Go Id
Popular Question 4.2 years ago, created a question with more than 1,000 views. For All Children, Grand Children Of Go Id
Great Question 5.4 years ago, created a question with more than 5,000 views. For Running Pymol From Python Script
Popular Question 5.4 years ago, created a question with more than 1,000 views. For All Children, Grand Children Of Go Id
Appreciated 6.9 years ago, created a post with more than 5 votes. For Surface Amino-Acid From Sequence Only
Appreciated 6.9 years ago, created a post with more than 5 votes. For 'How To' On Gene Ontology Analysis
Good Question 6.9 years ago, asked a question that was upvoted at least 5 times. For 'How To' On Gene Ontology Analysis
Popular Question 6.9 years ago, created a question with more than 1,000 views. For 'How To' On Gene Ontology Analysis
Popular Question 6.9 years ago, created a question with more than 1,000 views. For Running Pymol From Python Script
Supporter 6.9 years ago, voted at least 25 times.
Student 6.9 years ago, asked a question with at least 3 up-votes. For Surface Amino-Acid From Sequence Only
Student 6.9 years ago, asked a question with at least 3 up-votes. For 'How To' On Gene Ontology Analysis

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