User: Paul

gravatar for Paul
Paul70
Reputation:
70
Status:
Trusted
Location:
India
Last seen:
2 days, 13 hours ago
Joined:
7 years, 5 months ago
Email:
p***************@gmail.com

Posts by Paul

<prev • 76 results • page 1 of 8 • next >
0
votes
0
answers
116
views
0
answers
Comment: C: Genome annotation using COG
... Thankyou @ Nitin, the genome size is around 8Mb ...
written 27 days ago by Paul70
0
votes
0
answers
116
views
0
answers
Comment: C: Genome annotation using COG
... Thankyou so much for the detailed annotation @Nitin, I did a Quast quality analysis after the assembly, which showed me the following details, please let me know if I can go ahead with the assembly Statistics without reference # contigs 5801 N50 265554 N75 12966 L50 88 L75 ...
written 27 days ago by Paul70
2
votes
0
answers
116
views
0
answers
Genome annotation using COG
... I have some new organisms that were assembled and scaffolded using SPADES. Now, I have around 1000 of scaffolds for each organism genome. I want to functionally annotate the scaffolds against COG. I tried using webMGA. However, it requires a protein sequence as an input and I have nucleotide seque ...
annotation cog sequencing written 29 days ago by Paul70
4
votes
0
answers
184
views
0
answers
Genome Annotation of a new bacterial strain
... I have a new bacterial strain which I assembled using SPADES and scaffolded it using SPADES. Now to annotate the scaffolds, I used RAST. RAST has given me 8000 genes. I tried to annotate the genes using RAST. Out of 8000 genes, only 1497 genes got annotated using RAST. Could you please suggest me a ...
genome assembly sequencing annotation written 12 weeks ago by Paul70 • updated 7 weeks ago by Biostar ♦♦ 20
0
votes
1
answer
154
views
1
answers
Comment: C: Genes which are not associated with Alzheimer's
... No, need not to be expressed in Alzheimer's @ATpoint ...
written 3 months ago by Paul70
6
votes
1
answer
154
views
1
answer
Genes which are not associated with Alzheimer's
... I require a set of genes which are not associated with Alzheimer's. I got a list of all genes from OMIM genemap2. However, I am unable to put a filter of genes which are not associated with Alzheimer's. Please suggest me a way to find out the genes which are not associated with Alzheimer's. ...
genes alzheimers omim written 3 months ago by Paul70 • updated 3 months ago by Michael Dondrup45k
0
votes
0
answers
251
views
0
answers
How do i set different threshold to get multiple values for ROC plot
... Below is the code I have written to build a SVM model. I am using ROCR package for plotting the ROC plot. library(e1071) library(caret) library(gplots) library(ROCR) inTraining <- createDataPartition(data$Class, p = .70, list = FALSE) training <- data[ inTraining,] ...
e1071 R svm threshold roc written 4 months ago by Paul70
0
votes
0
answers
251
views
0
answers
Microarray analysis using limma multiple groups
... I am using a dataset GSE1297, which contains gene expression for multiple groups ( `Control`, `Incipient`, `Moderate`,`Severe`). My contrast matrix for analyzing the dataset looks like the following contrast.matrix <- makeContrasts( CI = Control - Incipient, CM = Control - Mode ...
limma affymetrix microarray written 5 months ago by Paul70 • updated 5 months ago by RamRS20k
0
votes
0
answers
370
views
0
answers
Comment: C: lesser fold change value using RMA background correction
... I think my design matrix is not proper, it should be like design.mat <- cbind(c(1,1,1,1,1,1,1,1,1,1,0,0,0,0,0,0,0,0,0,0), c(0,0,0,0,0,0,0,0,0,0,1,1,1,1,1,1,1,1,1,1)) colnames(design.mat) <- c("Case","Cont") design.mat correct this if I am wrong ...
written 5 months ago by Paul70
0
votes
0
answers
370
views
0
answers
Comment: C: lesser fold change value using RMA background correction
... I couldn't plot the whole logFC, but following is the head(genes) in descending order of logFC logFC AveExpr t P.Value adj.P.Val B 223500_at 1.338822221 9.704255821 4.121405486 0.000474727 0.107099415 -0.000301553 231783_at 1.26555711 7.575587468 2.809189 ...
written 5 months ago by Paul70

Latest awards to Paul

Teacher 11 weeks ago, created an answer with at least 3 up-votes. For A: Genome assembly contig ordering
Popular Question 6 months ago, created a question with more than 1,000 views. For How To Find Out The Transcripts?
Popular Question 6 months ago, created a question with more than 1,000 views. For How To Find Out The Transcripts?
Popular Question 9 months ago, created a question with more than 1,000 views. For how to draw a decision tree?
Popular Question 9 months ago, created a question with more than 1,000 views. For Mapping HGNC ID to uniprot ID
Popular Question 10 months ago, created a question with more than 1,000 views. For Mapping HGNC ID to uniprot ID
Popular Question 14 months ago, created a question with more than 1,000 views. For How To Find Out The Transcripts?
Popular Question 14 months ago, created a question with more than 1,000 views. For How to sort all the columns all together of a dataframe using R?
Popular Question 14 months ago, created a question with more than 1,000 views. For How to assemble contigs?
Popular Question 18 months ago, created a question with more than 1,000 views. For Mapping HGNC ID to uniprot ID
Scholar 18 months ago, created an answer that has been accepted. For A: Retrieving SRA files using Taxonomic IDs
Supporter 22 months ago, voted at least 25 times.
Popular Question 2.6 years ago, created a question with more than 1,000 views. For Mapping HGNC ID to uniprot ID

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1262 users visited in the last hour