User: andreiareis1987

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4 years, 7 months ago
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Posts by andreiareis1987

<prev • 14 results • page 1 of 2 • next >
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Comment: C: Deseq2 multiple variables!
... I removed the column and i have got the same error. :( ...
written 8 months ago by andreiareis198730
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Deseq2 multiple variables!
... Hi there, I have some doubt in my analysis. I have several variables in rnaseq analysis and i want to get the DEGs. sample experiment typeCell batch SD1-1_S6 C SN1 1 SD2-2_S13 C SN1 1 SD3-1_S4 C SN1 1 SD4-1_S17 C SN1 1 S-SC1-1_S8 C MN 1 S-S ...
R deseq2 written 8 months ago by andreiareis198730 • updated 8 months ago by swbarnes28.6k
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Comment: C: hg19 features -> mm10
... Thanks for your quickly reply. I will try the tss using ensembl perl API. For the kmers is more than a format. The number dont match very well... i read we have several algoritms to calculate kmers i wounder if i am using the right one ... Thanks again. ...
written 2.9 years ago by andreiareis198730
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hg19 features -> mm10
... Hi guys, I have been with several problems trying to figure out the way to get some files to run a specific program. The program is called Methy-pipe (http://journals.plos.org/plosone/article?id=10.1371/journal.pone.010036) Its acctually very cool program that makes your bisulphite data analysis i ...
mm10 watson.strand tsswindows kmer written 2.9 years ago by andreiareis198730 • updated 2.9 years ago by Jean-Karim Heriche23k
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Comment: C: % Alternative Splicing
... Sorry about my lack of clearness. My data is from ensembl: homo sapiens version 89.38. I downloaded the gff file for all genome to get the specific cellular GO ids according to the paper https://bmcevolbiol.biomedcentral.com/articles/10.1186/1471-2148-7-188 that i am reviewing. For the alternative ...
written 3.0 years ago by andreiareis198730
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% Alternative Splicing
... Hi guys, I am "remaking" some tasks (with updated data) from a paper and one of them is get alternative splicing frequency for some GO categories but i am stuck i read again and again the paper and i don't figure out how they got the numbers ... and asking for help to the writer not good ideia beca ...
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help geometadb r package
... Hi guys, I am new in Geometadb package in R! I have been doing some tests to understand how it works geometadb. Well my goal its to join all the tables (gsm, gpl, gse and gds) and next filter the metadata... but now i am focus on looking for all variables and data to understand its right or not t ...
geometadb R metadata written 4.6 years ago by andreiareis198730 • updated 2.0 years ago by RamRS30k
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Answer: A: regex dont match why??
... Problem resolved!   Conclusion: check always the files for extra spaces and stuff ahaha  ...
written 4.6 years ago by andreiareis198730
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Comment: C: regex dont match why??
... can i sent to your mail my script and my files?  ...
written 4.6 years ago by andreiareis198730
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Comment: C: regex dont match why??
... yes regex works on single line its just for header and the $header_sub variable only select the match for IDs example YER062C. my script works very well for others files that contains more than 300 IDs and search in genome file with more than 6000 sequences. The script retrieve all sequences ID's fr ...
written 4.6 years ago by andreiareis198730

Latest awards to andreiareis1987

Popular Question 2.8 years ago, created a question with more than 1,000 views. For subset fasta file sequences with id's file
Popular Question 2.8 years ago, created a question with more than 1,000 views. For regex dont match why??
Popular Question 2.8 years ago, created a question with more than 1,000 views. For help geometadb r package

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