User: juliaquingo

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Posts by juliaquingo

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Problems with annotation file
... Dear community, I have successfully aligned with Bowtie2 my sequencing reads. Now the problem came when I was using Cufflinks to calculate FPKM value. For some reason, the program does not recognize properly the annotation file. Thinking about possibilities, maybe doing the calculation without the ...
input cufflinks gtf annotation rna-seq written 2.1 years ago by juliaquingo0 • updated 2.1 years ago by Jennifer Hillman Jackson25k
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Comment: C: GROOMER ON NEXTSEQ500 DATA
... Thank you very much for your help ...
written 2.2 years ago by juliaquingo0
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Answer: A: GROOMER ON NEXTSEQ500 DATA
... Thank you so much for your help and prompt reply! ...
written 2.2 years ago by juliaquingo0
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Bowtie alignment with multiple datasets
... Dear community, I am now in the process of aligning RNA-seq reads with Bowtie2. My input is a list of 4 fastaq files, one per lane of the sequencing. Is it possible to preset the parameters so that the output from the alignment is a single file? Thanks you very much in advance Julia ...
galaxy bowtie rna-seq written 2.2 years ago by juliaquingo0
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Answer: A: GROOMER ON NEXTSEQ500 DATA
... Dear community, I am now in the process of aligning RNA-seq reads with Bowtie2. My input is a list of 4 fastaq files, one per lane of the sequencing. Is it possible to preset the parameters so that the output from the alignment is a single file? Thanks you very much in advance Julia ...
written 2.2 years ago by juliaquingo0
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GROOMER ON NEXTSEQ500 DATA
... Dear community, I am a beginner....trying to use Trimmomatic to clean adaptors/index from my NextSeq500 data. And the Input FASTQ quality scores type is not compatible. Then I would like to convert formats using Groomer, but I do not know which FASTQ quality scores type I should specifiy: Illumina ...
rna-seq illumina groomer fastq written 2.3 years ago by juliaquingo0

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