User: greyman

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greyman80
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Posts by greyman

<prev • 17 results • page 1 of 2 • next >
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Comment: C: Colour doesn't change in Manhanttan plot.
... thank you, as i have just figured out the answer, should i close this question? ...
written 4 days ago by greyman80
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Answer: A: Colour doesn't change in Manhanttan plot.
... I have figured out the answer. Made a mistakes by using `out$SNP` for highlighting the SNP. Below means highlight all the SNPs form `out` dataframe input, not what I needed: highlight = out$SNP And should be just a character vector of SNPs that need highlighting, for example.: highlight ...
written 4 days ago by greyman80 • updated 4 days ago by zx87546.2k
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Colour doesn't change in Manhanttan plot.
... Below is my R scripts for the manhanttan plot, many similar forums has used the same codes for their manhattan plot, but it seems doesnt work for me. Also, the default colour supposed to be black/grey but it turned green in my plot, may i know what mistakes i have made? manhattan(out, chr="CHR" ...
R qqman manhattanplot gwas written 4 days ago by greyman80 • updated 4 days ago by zx87546.2k
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Comment: C: Can we find SNP from fasta sequences ?
... As i wanted to extract the sequence region with SNP from exome data, is there anyway to do it from fastq? Last time when i use fasta i extract the gene sequence from whole genome data that has been split into gene data ...
written 5 months ago by greyman80
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Can we find SNP from fasta sequences ?
... I found the SNP from bam file and vcf workflow however I would like to try using FASTA for this process. Can we get Fasta format works? ...
fasta snp written 5 months ago by greyman80
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Comment: C: How to work with 2.6 TB genome data which is deposited in the server?
... Thanks genomax!! i would like to work on all data in once but it seems like i have to separate them into batch ...start searching about dual socket workstation like HP Z820 Tower Workstation 16-Core E5-2670 (16 cores, hard disk storage15TB, RAM32 GB).... and looks like i ll have to add more RAM to ...
written 6 months ago by greyman80
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Comment: C: How to work with 2.6 TB genome data which is deposited in the server?
... They dont own a HPC but they are interested to do modification to a Lenovo desktop that i m currently using. The 7k dollar would be invested in the modification, however, i ll request for more fund if buying a new desktop is necessary. They are expecting to see some fruitful output from the 2.6TB be ...
written 6 months ago by greyman80
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Comment: C: How to work with 2.6 TB genome data which is deposited in the server?
... Hi, thank you so much for your reply and i was asked to submit a grant proposal regarding CPU, RAM and HDD and probably a desktop in two days time. As the desktop gonna be placed at my personal workbench, with budget 7000 dollar, would it be possible to hear some advice from you in getting these har ...
written 6 months ago by greyman80
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Comment: C: How to get quality output for exome assembly ?
... thank you so much! I have no much information about adaptor sequence, only know that it generated by Hiseq sequencing. Would you think Trimmomatic using ILLUMINACLIP: Truseq gonna work? Would u recommend to try on BBDUK? Will input the BAM into genome viewer. There are @SQ in my BAM , how would y ...
written 6 months ago by greyman80
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Comment: C: How to work with 2.6 TB genome data which is deposited in the server?
... thank you, still learning... ...
written 6 months ago by greyman80

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