User: Roden Luo

gravatar for Roden Luo
Roden Luo20
Reputation:
20
Status:
New User
Location:
United States
Last seen:
3 years, 9 months ago
Joined:
4 years, 2 months ago
Email:
r********@gmail.com

Posts by Roden Luo

<prev • 8 results • page 1 of 1 • next >
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Comment: C: Tools to view fastq file
... I am going to try and give some feedbacks. Thank you Michael! ...
written 3.8 years ago by Roden Luo20
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Comment: C: Tools to view fastq file
... Yeah, so what I am looking is a little bit like: IGV without reference, and I can even drag(e.g. horizontally or vertically) the reads to align manually. Also like: I want to align/assemble about 20 reads in fastq format MANUALLY and see the results. Because I think if the amount of reads is not so ...
written 3.8 years ago by Roden Luo20
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Comment: C: Tools to view fastq file
... Thank you b.nota! Sorry I did not make it clear. I knew that I could head or cat and see the plain-text style of the reads. But what I am looking is to VIEW vividly. Like IGV without reference, and I can even drag(e.g. horizontally or vertically) the reads to align manually. ...
written 3.8 years ago by Roden Luo20
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Tools to view fastq file
... Hi ~, I am curious about whether there is a tool for us to VIEW fastq file(NGS raw data). Like IGV, we can view sam/bam files to get some insights or check the results. So what I am looking for is a tool that can show the sequences and qualities of a small number of reads(e.g. less than 20). My idea ...
fastq tool written 3.8 years ago by Roden Luo20 • updated 2.9 years ago by nora40
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Comment: C: Help required in making a script work for NGS data analysis pipeline
... Sorry. This reply presumes that you can try this on a Linux or Unix machine. And if you are going to use some other bioinformatics tools. I highly suggest that you use Linux to follow those tutorials. You can try Ubuntu, it is a free system. ...
written 4.2 years ago by Roden Luo20
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Comment: C: Help required in making a script work for NGS data analysis pipeline
... Oh, I did not notice you may use windows. That would be very complicated I think. ...
written 4.2 years ago by Roden Luo20
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Answer: A: Help required in making a script work for NGS data analysis pipeline
... Hi Adnan, As Pierre says, it is bash script. To fully understand it, you should first get some insights of linux bash commands, such `ls`, `cd`. Supposing you are following a tutorial, you should have some .fq files at `/data/reads/NA19240/.` They should name as `*_1.fq` and `*_2.fq`. And you shou ...
written 4.2 years ago by Roden Luo20 • updated 9 weeks ago by RamRS25k
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Which strand does the illumina sequencing platform output into fastq file under pair-end mode
... Hello ~, I am analyzing the raw sequencing data from illumina Miseq. I am puzzled at the question. In my impression, it outputs the newly synthesized strand from 5' to 3'. And this is consistent with the low quality at the 3' end because the longer the sequencing the larger the noise. However I no ...
adapter dna sequencing written 4.2 years ago by Roden Luo20

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