User: soosus

gravatar for soosus
soosus80
Reputation:
80
Status:
New User
Location:
Last seen:
5 years, 10 months ago
Joined:
6 years, 9 months ago
Email:
r************@biostars.org

about me

Posts by soosus

<prev • 23 results • page 1 of 3 • next >
1
vote
1
answer
1.8k
views
1
answer
Computing The Number Of Possible Rna Secondary Structures
... If I am to let z(n) denote the number of possible secondary structures of a given RNA of n nucleotides without crossing, what would be the recursive relation of z(n)? I must also argue that the time it takes to compute z(n) only grows as n to some power (or a power-law in n). I want to write a sim ...
rna structure secondary written 6.4 years ago by soosus80 • updated 6.4 years ago by jockbanan390
0
votes
1
answer
1.7k
views
1
answer
Formatting Data In R To Perform Factor Analysis Using Psych Package
... I'm dealing with a .csv full of RPKM values for various genes by genders, brain region, and age formatted thus: age 1 1 2 2 gender m f m f region a b c a gene1 4.2 2.2 4.1 3.3 gene2 0.4 2.1 3.2 3.3 gene3 ...
R analysis written 6.4 years ago by soosus80 • updated 6.4 years ago by Devon Ryan93k
0
votes
1
answer
1.9k
views
1
answers
Comment: C: Comparing Two Genes In An Affymetrix Microarray Dataset In R
... That doesn't help me in this context. I don't know how to select specific genes from an Affymetrix-type dataset. Once selected, sure, a basic t-test or regional ANOVA will be fine, but I can do neither of those things until I can specify the genes I'm interested in. ...
written 6.6 years ago by soosus80
1
vote
1
answer
1.9k
views
1
answer
Comparing Two Genes In An Affymetrix Microarray Dataset In R
... I'm working with an Affymetrix rat transcriptome in R and would like to compare, say, expression levels of MAOA and MAOA versus a housekeeping gene like ACTB. I've gone through the basic initial stages: rawdata = ReadAffy() eset = rma(rawdata) and am aware of the affy and limma packages but not e ...
R differential expression limma affymetrix written 6.6 years ago by soosus80 • updated 6.6 years ago by lkmklsmn920
3
votes
2
answers
1.8k
views
2
answers
Estimating Haplotypes
... Hypothetical question just to illustrate what I'm trying to do: A small gene "FOOBAR" on human chromosome 1 has been genotyped last year for three SNPs (in a LD block) for a total 1000 unrelated Finnish samples. The following are the summarized genotypes. Sample_1's genotypes for these three SNPs a ...
haplotype snps written 6.7 years ago by soosus80
0
votes
2
answers
1.9k
views
2
answers
Comment: C: Converting Solexa Reads To Fastq And Identifying Mismatched Bases
... I mean the chromosomal position of locations where the reference base does not match the alternative base. Also, thanks for your reply! ...
written 6.7 years ago by soosus80
0
votes
2
answers
1.9k
views
2
answers
Converting Solexa Reads To Fastq And Identifying Mismatched Bases
... I would like to write a simple script or single line perl to convert the following two Solexa sequence reads (assume these reads in a text file "Solexa.export.txt") into fastq format. (Note: the quality scores are coded as ASCII offset of 64): ILLUMINA-A93428 66 1 1 7848 1267 ...
R fastq written 6.7 years ago by soosus80 • updated 6.7 years ago by Mitch Bekritsky1.2k
0
votes
1
answer
4.0k
views
1
answers
Comment: C: Resolving Errors Using Ggplot2 To Create A Heatmap Of P-Values In R
... Good eye, thanks! ...
written 6.7 years ago by soosus80
0
votes
1
answer
4.0k
views
1
answers
Comment: C: Resolving Errors Using Ggplot2 To Create A Heatmap Of P-Values In R
... I have added input files. And yeah, ordinarily I wouldn't call a function "fun", it's just a placeholder in this case. ...
written 6.7 years ago by soosus80
2
votes
1
answer
4.0k
views
1
answer
Resolving Errors Using Ggplot2 To Create A Heatmap Of P-Values In R
... I want to take two data files formatted like this (they have the same column names and numbers of rows): Basal Part of Pons,Ventral Thalamus,Cingulate gyrus,Insula,Epithalamus,Subthalamus,Brain,Occipital Lobe,Sulci & Spaces,White Matter,parahippocampal gyrus,hippocampal formation,Amygdala,Tempo ...
R heatmap written 6.7 years ago by soosus80 • updated 6.7 years ago by Jeremy Leipzig18k

Latest awards to soosus

No awards yet. Soon to come :-)

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 832 users visited in the last hour