User: dimitrischat

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dimitrischat40
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22 hours ago
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1 year, 2 months ago
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Posts by dimitrischat

<prev • 37 results • page 1 of 4 • next >
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rna seq - deseq2
... Hello all again, i was using cuffdiff (the last step) thus far to do rna-seq analysis but as i ve read and been told cuffdiff is outdated and now i have been using deseq2 ( i got no idea of R but with the help of this link : https://dwheelerau.com/2014/02/17/how-to-use-deseq2-to-analyse-rnaseq-data/ ...
rna-seq written 4 months ago by dimitrischat40 • updated 4 months ago by Biostar ♦♦ 20
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ftp server usegalaxy filezilla problem
... trying to connect with more than one pc/mac/linux but i cannot connect. account is ok and password ok. the error : Connecting to 129.114.60.60:21... Status: Connection established, waiting for welcome message... Status: Initializing TLS... Status: Verifying certificate... Stat ...
software error written 5 months ago by dimitrischat40 • updated 5 months ago by Devon Ryan78k
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Comment: C: RNA seq pipeline
... deseq2 and sleuth are both in R, right? is there any other program out there that doesnt need r? ...
written 5 months ago by dimitrischat40
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Comment: C: RNA seq pipeline
... Thank you for your reply. So what pipeline should i use? I have no idea with these programs. Also is hg38 complete? Someone told me that it isnt finished(?) yet? ...
written 5 months ago by dimitrischat40
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Comment: C: RNA seq pipeline
... thank you very much. What is the pipeline with those? I could really use your help. ...
written 5 months ago by dimitrischat40
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6 follow
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RNA seq pipeline
... Hello again. I am new to bioninformatics and i need some guidance. I am trying to do an RNA seq analysis but the output seems a bit wrong. I got a type of cells for example h at 0,3 and 6 hour, and i got 2 replicates. And i want to compare 0h to 3h and 0h to 6h. So my sampels are: h0b,h0c,h3b,h3c,h6 ...
rna-seq written 5 months ago by dimitrischat40
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tophat2 bowtie2index error
... hi all, trying to run tophat2 , with -G xx.gtf and bowtie2index. the command is : tophat2 --library-type fr-unstranded -g 1 -G /home/..../**Homo_sapiens.GRCh38.90.gtf** /home/..../Homo_sapiens/UCSC/hg38/Sequence/**Bowtie2Index/genome** /home/.../xx.fastq The error : Building Bowtie ind ...
rna-seq written 6 months ago by dimitrischat40 • updated 6 months ago by genomax46k
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Comment: C: input of cummerbund
... is there an option for that in the command line ? because i (prefer) ran cuffdiff in terminal. many thanks edit: or manipulate yourself the output(s) of cuffdiff to make an sqlite file? ...
written 9 months ago by dimitrischat40
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Comment: C: input of cummerbund
... ok thank you. i will read it through ...
written 9 months ago by dimitrischat40
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input of cummerbund
... Hello all. I finally ran cuffdiff successfully, but now i wanna run cummeRbund on galaxy. i have no idea which of the outputs i must use. do i have to do something now or i had to put an option when cuffdiff ran so i had a specific output for cummeRbund? ...
rna-seq written 9 months ago by dimitrischat40 • updated 9 months ago by e.rempel640

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