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User: Renesh

gravatar for Renesh
Renesh • 1.3k
Reputation:
1,300
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Trusted
Location:
United States
Last seen:
3 weeks, 3 days ago
Joined:
4 years ago
Email:
r******@gmail.com

I am working as postdoctoral research associate at Texas A&M University. I have involved in several Bioinformatics projects, from small to large scale sequence analysis to address abiotic and biotic stresses in plants (Cotton, Sugarcane, Rice, Potato, Tomato, Spartina etc.). I have largely applied Next generation sequencing (NGS) RNA-seq approach to study molecular mechanisms and transcriptional regulation under various abiotic and biotic stresses in a model and non-model plant species. Additionally, I have developed algorithms and software pipeline for efficient analysis for large scale biological data generated from NGS instruments.

Posts by Renesh

<prev • 173 results • page 1 of 18 • next >
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Comment: C: Gene expression units explained: RPM, RPKM, FPKM and TPM
... Thank you for your comments and concerns. I have updated the formulae for clear understanding. ...
written 6 weeks ago by Renesh • 1.3k
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Comment: C: Gene expression units explained: RPM, RPKM, FPKM and TPM
... Can you please explain, where I am wrong in TPM calculation? If you read the paper, it clearly says, T is the total number of transcripts sampled by total sequenced reads. Please, let me know where I am wrong. ...
written 7 months ago by Renesh • 1.3k
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Comment: C: FPKM threshold and filter
... Filter out all transcripts with FPKM variance less than one across all samples/conditions ...
written 11 months ago by Renesh • 1.3k
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Comment: C: installing perl packages.
... You should also try with `yum install` to install the perl packages like `yum install perl-Parallel-ForkManager-1.190.0-1.mga7.noarch` `yum install perl-Tie-IxHash-1.230.0-6.mga6.noarch` `yum install perl-Config-General-2.630.0-1.mga7.noarch` Note: you need to have root permission to install th ...
written 11 months ago by Renesh • 1.3k
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Comment: C: installing perl packages.
... Which Linux you have? ...
written 11 months ago by Renesh • 1.3k
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Answer: A: installing perl packages.
... You can use `capnm` to install the Perl packages. You can type following command on window, Linux, Mac terminal to install `cpanm` `cpan App::cpanminus` After installing `cpanm` use follwing command to install Perl modules, `cpanm Config::General ` Source: http://www.cpan.org/modules/INSTALL.ht ...
written 11 months ago by Renesh • 1.3k
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Comment: C: Is Bio.SeqIO.write() sequential for fastq format?
... Looks like your code is incomplete. Where is panda dataframe object defined? ...
written 11 months ago by Renesh • 1.3k
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Comment: C: How to quantify the overlapping reads in paired-end DNA sequencing to check the
... The term fragment length from BAM file corresponds the total size covered by paired-end reads which may or may not equal to insert size. ...
written 11 months ago by Renesh • 1.3k
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Comment: C: How to quantify the overlapping reads in paired-end DNA sequencing to check the
... https://drive.google.com/file/d/0B3SqUxkB3WxnRWtZbldlOHhZNHM/view?usp=sharing ...
written 11 months ago by Renesh • 1.3k
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Answer: A: How to quantify the overlapping reads in paired-end DNA sequencing to check the
... https://drive.google.com/file/d/0B3SqUxkB3WxnRWtZbldlOHhZNHM/view?usp=sharing ...
written 11 months ago by Renesh • 1.3k

Latest awards to Renesh

Appreciated 3 months ago, created a post with more than 5 votes. For A: Does read-depth refer to a fold?
Prophet 3 months ago, created a post with more than 20 followers. For Gene expression units explained: RPM, RPKM, FPKM and TPM
Epic Question 3 months ago, created a question with more than 10,000 views. For Extract specific patter from string in MySQL:
Great Question 6 months ago, created a question with more than 5,000 views. For Gene expression units explained: RPM, RPKM, FPKM and TPM
Epic Question 6 months ago, created a question with more than 10,000 views. For Extract specific patter from string in MySQL:
Appreciated 10 months ago, created a post with more than 5 votes. For A: Does read-depth refer to a fold?
Popular Question 10 months ago, created a question with more than 1,000 views. For Cufflink p-value using blind dispersion method
Popular Question 10 months ago, created a question with more than 1,000 views. For How to use seek() with Biopython SeqIO object
Teacher 10 months ago, created an answer with at least 3 up-votes. For A: Masters Ideas in Computer Science that tackles Bioinformatics Problem
Scholar 11 months ago, created an answer that has been accepted. For A: Is there a way to know sequences length when querying ENA programmatically?
Scholar 11 months ago, created an answer that has been accepted. For A: Is there a way to know sequences length when querying ENA programmatically?
Guru 11 months ago, received more than 100 upvotes.
Scholar 11 months ago, created an answer that has been accepted. For A: Is there a way to know sequences length when querying ENA programmatically?
Scholar 12 months ago, created an answer that has been accepted. For A: Is there a way to know sequences length when querying ENA programmatically?
Scholar 12 months ago, created an answer that has been accepted. For A: Is there a way to know sequences length when querying ENA programmatically?
Scholar 12 months ago, created an answer that has been accepted. For A: Is there a way to know sequences length when querying ENA programmatically?
Teacher 12 months ago, created an answer with at least 3 up-votes. For A: Masters Ideas in Computer Science that tackles Bioinformatics Problem
Autobiographer 12 months ago, has more than 80 characters in the information field of the user's profile.
Great Question 20 months ago, created a question with more than 5,000 views. For AttributeError: 'str' object has no attribute 'next'
Popular Question 20 months ago, created a question with more than 1,000 views. For Cufflink p-value using blind dispersion method
Teacher 20 months ago, created an answer with at least 3 up-votes. For A: Masters Ideas in Computer Science that tackles Bioinformatics Problem
Teacher 20 months ago, created an answer with at least 3 up-votes. For A: How do you organize your articles?
Great Question 21 months ago, created a question with more than 5,000 views. For AttributeError: 'str' object has no attribute 'next'
Teacher 21 months ago, created an answer with at least 3 up-votes. For A: venn diagram for gene lists using R
Popular Question 2.9 years ago, created a question with more than 1,000 views. For AttributeError: 'str' object has no attribute 'next'
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