User: Rituriya

gravatar for Rituriya
Rituriya30
Reputation:
30
Status:
New User
Location:
Canada
Last seen:
1 year, 1 month ago
Joined:
8 years, 8 months ago
Email:
p***********@gmail.com

I am a Bioinformatician since 2009, working on various types of Next generation sequencing datasets. Mostly using open source tools and softwares to analyze the data. Keen on understanding how machine learning and AI go hand in hand and would love to learn more programming in my free time.  

Posts by Rituriya

<prev • 37 results • page 1 of 4 • next >
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Answer: A: lncRNA and circular RNA identification softwares
... For lncRNA only, if it helps anyone, I am planning to try out softwares discussed in following thread: [https://www.biostars.org/p/336673/][1] [1]: https://www.biostars.org/p/336673/ ...
written 13 months ago by Rituriya30
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Comment: C: lncRNA and circular RNA identification softwares
... Thank you piyushjo for the directions. I will definitely go through the articles suggested. ...
written 13 months ago by Rituriya30
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lncRNA and circular RNA identification softwares
... Hi All, I have total RNA-seq data from Illumina. I am trying to find a decent software to detect and analyse long non-coding RNA (lncRNA) and circular RNA (circRNA). For circRNA, I am thinking of circExplorer2 mostly. Please suggest any other alternatives. I am unable to find a software for lncRNA ...
rnaseq software circrna lncrna written 13 months ago by Rituriya30
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Answer: A: miRDeep2 "no file 'precursors.fa_stack' found" error.
... Re-run by replacing the last portion of your command: '-t Human -g -1 hsa -v' with '-t hsa'. ...
written 13 months ago by Rituriya30
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Comment: C: Choosing human reference genome and indexing
... Hi Batu, what did you finally use then as the GTF annotation? I am still planning to stick to point 1. ...
written 13 months ago by Rituriya30
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Comment: C: Compatibility between my reference genome and GTF file
... Hi Batu, I am stuck in the same situation as yours and surprised how come no one else is reporting this incompatibility. I am using HISAT2 GrCh38 release 84 version and using same version of GrCh38.84 version of gtf from Ensembl to be sure. But it is so outdated as the latest version now is 97! Ple ...
written 15 months ago by Rituriya30
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Comment: C: prepDE.py error - line 255 - gene ID related
... Hello Rituriya! We believe that this post does not fit the main topic of this site. Figured an issue on my end while processing the raw data. I had not given the right path in the grouping file! Wish the error said that rather than the one mentioned above. For this reason we have closed your que ...
written 15 months ago by Rituriya30
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Comment: C: prepDE.py error - line 255 - gene ID related
... Thank you Kristoffer for the details. I will give it a try. ...
written 15 months ago by Rituriya30
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(Closed) prepDE.py error - line 255 - gene ID related
... Hi all, I have been using the script provided by StringTie named 'prepDE.py' for getting gene and transcript abundances. It was working fine with another set of mouse samples but failing now with these set of human samples. /Softwares/prepDE.py -i grouping-info.txt 0 Sample1 1 Sample2 ...
stringtie prepde.py error rna-seq geneid written 15 months ago by Rituriya30 • updated 15 months ago by kristoffer.vittingseerup3.4k
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Finding a biomarker from DE genes
... Hi All, I have around say 150 differentially expressed (DE) genes between 2 groups (control and treatment of a disease) by RNA-seq. My goal is to really shorten this list and find that few number of genes, which are of utmost significance which acts as a marker for this disease. Now my problem is ...
mirna biomarker differential expression rna-seq written 17 months ago by Rituriya30 • updated 17 months ago by Buffo1.8k

Latest awards to Rituriya

Autobiographer 18 months ago, has more than 80 characters in the information field of the user's profile.
Great Question 4.1 years ago, created a question with more than 5,000 views. For Collapse Probes For Same Gene
Popular Question 8.7 years ago, created a question with more than 1,000 views. For Collapse Probes For Same Gene

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