User: noorpratap.singh

Reputation:
280
Status:
Trusted
Location:
India
Website:
https://github.com/NPSDC
Last seen:
2 hours ago
Joined:
3 years ago
Email:
n*********@gmail.com

I am currently doing my  MS at IIIT-H where I am enrolled in CND program(Btech in Computer Science and MS by Research in Computational Natural Sciences. My interests lie in interplay of Computer Science and Biology. 

Posts by noorpratap.singh

<prev • 55 results • page 1 of 6 • next >
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Comment: C: Bioinformatician - Genome Biologics - Accelerating Drug Development
... Are there any remote internship opportunities that are available? ...
written 3 months ago by noorpratap.singh280
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Comment: C: processing data from local fold using TCGAbiolinks
... The folder you mention, does it contain all the files listed by query. To see the total files by query use the following: `nrow(query$results[[1]])` Compare with the total downloaded files in your folder. Further could you send me the exact query you used as it would be then easier to troubleshoo ...
written 3 months ago by noorpratap.singh280
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Comment: C: processing data from local fold using TCGAbiolinks
... In the following command replace "GDCdata" with the local folder name. `GDCprepare_clinic(query, directory = "GDCdata")` ...
written 3 months ago by noorpratap.singh280
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Comment: A: Join Healx as a Scientific Programmer to find new treatments for rare disease pa
... Is the option to work remotely available? ...
written 3 months ago by noorpratap.singh280
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Comment: C: For GEO data, how to calculate the average methylation level of the gene promote
... I am not familiar with GEO but data should contain probe level information. The genomic locations of the probes can be extracted from Illumina450K annotation given the data has been retrieved by that.[Illumina Manifest][1]. Once you have that then the [paper][2] outlines a method for associating bet ...
written 4 months ago by noorpratap.singh280
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Comment: C: Error in GDCprepare
... Updated. Thanks for the advise. ...
written 5 months ago by noorpratap.singh280
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Comment: C: Difficulty Converting lncRNA gene symbol to Ensembl
... The following website might help https://genealacart.genecards.org/Query You need create an account. In addition directly going to genecards website and typing the RNA in query is also a way around if you have a very limited set of genes ...
written 5 months ago by noorpratap.singh280
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Comment: C: Error in GDCprepare
... Hi, Few things. Coming specifically to your query, the returned object of GDCPrepare is a data.frame (not an object of any other class). Thus you cannot apply assay function. Raw counts are present in the data.frame along with the other elements. To extract them use following: ``` Matrix.C1 <- ...
written 5 months ago by noorpratap.singh280
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Answer: C: Error in GDCprepare
... Could you please write the query, otherwise its hard to speculate. Further at times errors occur using this package owing to updates. Make sure you update it by typing the following command in R/Rstudio. ``` devtools::install_github(repo = "BioinformaticsFMRP/TCGAbiolinks") ``` ...
written 5 months ago by noorpratap.singh280
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Comment: C: RNAseq differential expression analysis : learning design matrix
... I have gone through these courses and these actually provide a solid intuition behind the same. ...
written 5 months ago by noorpratap.singh280

Latest awards to noorpratap.singh

Popular Question 12 weeks ago, created a question with more than 1,000 views. For Retrieving data from new data portal of tcga
Appreciated 3 months ago, created a post with more than 5 votes. For C: RNA-seq Differential Gene Analysis
Scholar 3 months ago, created an answer that has been accepted. For A: Random forest for gene expression
Scholar 5 months ago, created an answer that has been accepted. For A: Random forest for gene expression
Teacher 5 months ago, created an answer with at least 3 up-votes. For A: Random forest for gene expression
Supporter 5 months ago, voted at least 25 times.
Popular Question 5 months ago, created a question with more than 1,000 views. For Getting subtypes of cancer from TCGA
Teacher 5 months ago, created an answer with at least 3 up-votes. For A: Random forest for gene expression
Scholar 6 months ago, created an answer that has been accepted. For A: Random forest for gene expression
Teacher 6 months ago, created an answer with at least 3 up-votes. For A: Random forest for gene expression
Popular Question 8 months ago, created a question with more than 1,000 views. For Getting subtypes of cancer from TCGA
Teacher 17 months ago, created an answer with at least 3 up-votes. For A: Random forest for gene expression
Scholar 17 months ago, created an answer that has been accepted. For A: Random forest for gene expression
Teacher 17 months ago, created an answer with at least 3 up-votes. For A: Random forest for gene expression
Autobiographer 22 months ago, has more than 80 characters in the information field of the user's profile.
Popular Question 23 months ago, created a question with more than 1,000 views. For Getting subtypes of cancer from TCGA
Popular Question 2.5 years ago, created a question with more than 1,000 views. For Retrieving data from new data portal of tcga

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