User: suneetamodekurty77

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Posts by suneetamodekurty77

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Comment: C: Running prepare.py on remote server
... Got it! Thank you! ...
written 27 days ago by suneetamodekurty770
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Comment: A: Running prepare.py on remote server
... thank you will remember the advise. ...
written 29 days ago by suneetamodekurty770
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Comment: A: Running prepare.py on remote server
... Thank you for the advise. I also read the manual for stringtie and learnt the -A option but my question is,how to get a single gene count matrix for DESeq 2 . I am unable to do that. ...
written 29 days ago by suneetamodekurty770
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Running prepare.py on remote server
... Hi Greetings I am trying to run prepDE.py on remote server of my university but There is an error python: can't open file 'prepDE.py': [Errno 2] No such file or directory Please advise an alternative to get the count matrix with stringtie. I used the `-A` option with stringtie and g ...
stringtie rna-seq prepde.py written 29 days ago by suneetamodekurty770 • updated 27 days ago by kristoffer.vittingseerup2.0k
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Answer: A: bioinformatics tools to connect modifications on RNA to its structure
... I have modifications as bedfiles and have structure as .dot bracket format Dot bracket format is as below ...((((......)))).... Somewhat like the above each dot and each bracket corresponds to either A,C,G or T So also a .ct file has a number that corresponds to to the bases. So I have modifications ...
written 5 weeks ago by suneetamodekurty770
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Answer: A: bioinformatics tools to connect modifications on RNA to its structure
... my modifications data is in the bed format. yes, that's the end goal, to identify which modifications correspond to paired and which correspond to unpaired nucleotides. So, I want to know how I can do that. Is there a software?My structures data is in the form of .ct files. https://rna.urmc.roches ...
written 7 weeks ago by suneetamodekurty770
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bioinformatics tools to connect modifications on RNA to its structure
... Hi I have modifications on RNAs and also have their predicted structures. Is there any tool that can map the modifications to structure (to see whether the modifications fall on the paired or the unpaired regions)? Thank you ...

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