User: christopher medway

Reputation:
390
Status:
Trusted
Location:
Cardiff, UK
Last seen:
1 week, 1 day ago
Joined:
3 years, 2 months ago
Email:
c****************@gmail.com

Posts by christopher medway

<prev • 66 results • page 1 of 7 • next >
1
vote
0
answers
231
views
0
answers
Job: Clinical Bioinformatician (University Hospital of Wales, Cardiff, UK)
... University Hospital of Wales, based in Cardiff (UK), are advertising a [Clinical Bioinformatics][1] post. [1]: https://www.healthjobsuk.com/job/UK/Cardiff/Cardiff/Cardiff_Vale_University_Health_Board/Bioinformatics/Bioinformatics-v1261350?_ts=962 ...
bioinformatics ngs clinical bioinformatics job written 18 days ago by christopher medway390 • updated 18 days ago by genomax56k
0
votes
1
answer
68
views
1
answers
Comment: C: is it possible to exclude SNPs with low genotyping rate (mind)(geno)(maf) using
... So over 60% of the SNPs in besta_new2_1_1.bim are not included in BANGWAS3NOV2011. Is this what you expected? 618093 markers to be merged from [ besta_new2_1_1.bim ] Of these, 395002 are new, 223091 already exist in current data 479 individuals merged from [ besta_new2_1_1.fam ] Of these, 479 w ...
written 6 months ago by christopher medway390
0
votes
1
answer
68
views
1
answers
Comment: C: is it possible to exclude SNPs with low genotyping rate (mind)(geno)(maf) using
... Please post up the log file for the final merge step ...
written 6 months ago by christopher medway390
0
votes
0
answers
247
views
0
answers
Comment: C: pythonic equivalent to reduce() in R GRanges - how to collapse ranged data?
... The data is stored as a CSV to disk. As a python newbie, I guess I would load as a pandas table, but I am open to suggestions. ...
written 6 months ago by christopher medway390
1
vote
0
answers
247
views
0
answers
pythonic equivalent to reduce() in R GRanges - how to collapse ranged data?
... I posted this question on stackoverflow, but it did not get a response. It is a bioinformatics query, so perhaps this is a better forum: Is there are pythonic equivalent to the R ranges operation below? In R (albeit longwinded): Here is a test data.frame df <- data.frame( "CHR" = c( ...
R python written 6 months ago by christopher medway390
0
votes
0
answers
408
views
0
answers
Comment: C: Sorting the haplotypes by similarities of SNPs in R
... This will order the dataframe by "Main" and "-1" (minus1). You probably should not use numbers as headers. dat[order(dat$Main,dat$minus1),] where dat is your full data frame ...
written 7 months ago by christopher medway390
0
votes
1
answer
207
views
1
answers
Answer: A: Parsing Coding Seq w grep
... I assume you want to extract sequence from the GenBank file. If this is true, there are dedicated libraries that will make this a whole lot easier, See [this post][1] [1]: https://www.biostars.org/p/179518/ ...
written 7 months ago by christopher medway390
1
vote
0
answers
519
views
0
answers
Comment: C: mapping between gene symbol and entrez ID
... Yes I think you should be using "SYMBOL" instead of "ALIAS" ...
written 7 months ago by christopher medway390
0
votes
1
answer
168
views
1
answers
Answer: A: Ploting the reads overlap Gene
... Take a look at the [Gviz][1] package in R. This may be of use. [1]: https://bioconductor.org/packages/release/bioc/html/Gviz.html ...
written 7 months ago by christopher medway390
1
vote
1
answer
462
views
1
answers
Answer: A: Loading PLINK files to Haploview
... Open as "Linkage Format" - .ped file goes into the 'Data File' field; .info into 'Locus Information File.' ...
written 7 months ago by christopher medway390

Latest awards to christopher medway

Popular Question 18 days ago, created a question with more than 1,000 views. For Haploview error using command line ""Thread-0" java.lang.NullPointerException"
Popular Question 7 months ago, created a question with more than 1,000 views. For Haploview error using command line ""Thread-0" java.lang.NullPointerException"
Scholar 7 months ago, created an answer that has been accepted. For C: merging plink files
Scholar 17 months ago, created an answer that has been accepted. For C: merging plink files
Teacher 17 months ago, created an answer with at least 3 up-votes. For A: Is there a quick method to extract regularly-spaced features/SNPs from a VCF fil
Scholar 20 months ago, created an answer that has been accepted. For C: merging plink files
Teacher 20 months ago, created an answer with at least 3 up-votes. For A: Is there a quick method to extract regularly-spaced features/SNPs from a VCF fil
Scholar 20 months ago, created an answer that has been accepted. For C: merging plink files

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1690 users visited in the last hour