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User: shuo.li

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shuo.li • 10
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New User
Location:
Australia
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1 year, 7 months ago
Joined:
2 years, 6 months ago
Email:
s******@monash.edu

Posts by shuo.li

<prev • 7 results • page 1 of 1 • next >
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Comment: C: 3-D PCA plot
... Thank you Jen for the reply. To plot PCA, what type of data do I need? I uploaded the RNAseq data that I got from service provider, but have not yet trimmed or aligned to human genome. Do I need to do this two things first? Thanks a lot for your help Lucy ...
written 19 months ago by shuo.li • 10
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3-D PCA plot
... Hi, does anyone know if Galaxy.org can do principle component analysis? my boss asked for a 3-D PCA figure and I have no clue how to do it. Thanks for any tip on this, Lucy ...
statistics galaxy pca plot written 19 months ago by shuo.li • 10 • updated 19 months ago by y.hoogstrate • 460
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After loading up RNAseq data, what to do next?
... Hi, Could an expert please give me a lay instruction on below matters? -- Q1: I have uploaded my RNAseq data (gene expresssion) to galaxy, what is the next step? such as quality control?? Q2: I have used up 95% of my space, is there any possiblity to get more space, such as create a 2nd account ...
rna-seq written 20 months ago by shuo.li • 10 • updated 20 months ago by Jennifer Hillman Jackson ♦ 24k
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File 3 - 5 GB, how to upload?
... Hi, My RNAseq data are huge, ~ 3 to 5 GB each. The university service provider ftp side has password, I asked but they say it is not possible to remove the password. Thus not possible for Galaxy to fetch it from the ftp side. Is there another way? I heard about the "library" upload, but could n ...
ftp upload written 21 months ago by shuo.li • 10 • updated 21 months ago by Jennifer Hillman Jackson ♦ 24k
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fastq.gz file, how to upload to galaxy?
... Dear colleagues, It is my first RNAseq project, and I am a lab scientist with no expertise in bioinformatics. I received RNAseq data from our NGS service provider, they are in .fastq.gz. Q: can I upload this .gz format to galaxy or need to first convert to decompress the files? Thanks a lo ...
upload rna-seq written 21 months ago by shuo.li • 10 • updated 21 months ago by Martin Čech ♦♦ 4.5k
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Comment: C: Can someone give me a foolproof instruction on how to merge R1 and R2 illumina f
... Thank you very much for the helpful explanation. I have another question: after quality filter some reads become considerable shorter. If I want to filter out all reads <50nt, or keep all the reads > 50nt, for a fastq file, how to do this? Thanks a lot for your help Shuo Li ...
written 2.6 years ago by shuo.li • 10
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Can someone give me a foolproof instruction on how to merge R1 and R2 illumina fastq files
... Dear Galaxy experts,               I need to merge R1 and R2 Illumina paired end reads. The amplicon was ~550nt, sequenced using 300nt x2 Illumina chemistry. The 2 reads should overlap in middle. so it is an align/merge task.  After loading the data to Galaxy, I could not figure out what to ...
lay instructions written 2.6 years ago by shuo.li • 10 • updated 2.6 years ago by Jennifer Hillman Jackson ♦ 24k

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