Ecosyste.ms: Issues

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GitHub / stephenturner/qqman issues and pull requests

#73 - 0

Issue - State: closed - Opened by junchcb 5 months ago

#70 - Add posibility to control annotation font size.

Pull Request - State: open - Opened by bartosz-kozak about 1 year ago

#69 - Update qqman.Rmd

Pull Request - State: closed - Opened by smasongarrison about 1 year ago - 1 comment

#68 - x ticks not in the center of chromosome

Issue - State: open - Opened by zpliu1126 over 1 year ago

#67 - overlap labels in Manhattan plot

Issue - State: open - Opened by catheriz over 1 year ago

#66 - Width of manhattan plot

Issue - State: closed - Opened by neginmb over 3 years ago

#65 - Refactored using dplyr functions

Pull Request - State: closed - Opened by calpan about 6 years ago - 1 comment

#64 - make annotatePval and annotateTop work with logp=FALSE

Pull Request - State: closed - Opened by timflutre over 6 years ago - 2 comments

#63 - Add flag to control annotation text size

Issue - State: closed - Opened by oyhel over 6 years ago

#62 - Column CHR not found!

Issue - State: closed - Opened by geneticsmcgill over 6 years ago - 4 comments

#61 - Increase font size of annotation

Issue - State: closed - Opened by jsreddy82 almost 7 years ago - 2 comments

#60 - Error due to very very small and/or NA P values

Issue - State: closed - Opened by zjuwhw almost 7 years ago - 1 comment

#59 - Error: need finite 'ylim' values

Issue - State: closed - Opened by edwardphineas about 7 years ago - 2 comments

#58 - Something wrong in my dataset... but what?!

Issue - State: closed - Opened by edwardphineas about 7 years ago - 6 comments

#57 - trying to color qqplot points

Issue - State: closed - Opened by elsadebecker about 7 years ago - 1 comment

#56 - Question: how do I get all the chromosomes labels displayed on the x-axis?

Issue - State: closed - Opened by swvanderlaan about 7 years ago - 3 comments

#55 - Add a CITATION file and update DESCRIPTION

Pull Request - State: closed - Opened by daissi over 7 years ago - 1 comment

#54 - Possible to overlay manhattan plots?

Issue - State: closed - Opened by jamesrpriest over 7 years ago - 1 comment

#53 - Column CHR not found

Issue - State: closed - Opened by reddamez over 7 years ago - 3 comments

#52 - warning for annotatePval

Issue - State: closed - Opened by ruoxichen5 over 7 years ago - 3 comments

#51 - Error in plot.window(...) : need finite 'ylim' values

Issue - State: closed - Opened by elcansaito over 7 years ago - 2 comments

#50 - Update manhattan.R

Pull Request - State: closed - Opened by GeneticResources over 7 years ago - 3 comments

#49 - Warning: plot with P-values off by a factor of ~10

Issue - State: closed - Opened by mrmousel over 7 years ago - 3 comments

#48 - Manhattan plot of a subset of markers returns wrong bp positions

Issue - State: closed - Opened by manuramon almost 8 years ago - 1 comment

#47 - Feature Request: Annotate SNPs Set Font Size

Issue - State: closed - Opened by ParsaAkbari almost 8 years ago - 1 comment

#46 - suggestive and genome wide lines

Issue - State: closed - Opened by mcoignet almost 8 years ago - 5 comments

#45 - heatmap

Issue - State: closed - Opened by mcoignet about 8 years ago - 1 comment

#44 - highlighting issues

Issue - State: closed - Opened by mcoignet about 8 years ago - 1 comment

#43 - Bars or Lines instead of dots

Issue - State: closed - Opened by Spendlove about 8 years ago - 1 comment

#42 - Adding blank gaps between chromosomes to manhattan

Issue - State: closed - Opened by vsvinti over 8 years ago

#41 - Gaps between Chromosomes

Issue - State: closed - Opened by BOUDHRIOUA over 8 years ago - 1 comment

#40 - Highlighting SNP using position instead of SNP characters.

Issue - State: closed - Opened by NikoLichi over 8 years ago - 2 comments

#39 - Manhattan plot with many scaffold numbers

Issue - State: closed - Opened by chung154 over 8 years ago - 2 comments

#38 - Highlight multiple different vectors and colour them differently?

Issue - State: closed - Opened by evad80 over 8 years ago - 5 comments

#37 - using multiple colours to highlight SNPs

Issue - State: closed - Opened by EllaBowles over 8 years ago - 1 comment

#36 - Draw a vertical line on GWAS plot

Issue - State: closed - Opened by ubs717 almost 9 years ago - 1 comment

#35 - Allow character values for chromosomes

Issue - State: closed - Opened by stephenturner almost 9 years ago - 2 comments

#34 - Error in plot.window(...) : need finite 'ylim' values

Issue - State: closed - Opened by Adisha05 almost 9 years ago - 11 comments

#33 - Label snps feature request

Issue - State: closed - Opened by bbanbury almost 9 years ago - 2 comments
Labels: enhancement, wontfix

#32 - About return value

Issue - State: closed - Opened by zjf19870628 about 9 years ago - 3 comments
Labels: enhancement, wontfix

#31 - add gene names to manhattan?

Issue - State: closed - Opened by kippakers about 9 years ago - 1 comment

#30 - how change Y axis

Issue - State: closed - Opened by Amirak18 about 9 years ago - 1 comment

#29 - qq accepts data.frame and supports highlighting

Pull Request - State: closed - Opened by cth over 9 years ago - 1 comment

#28 - adding background color

Issue - State: closed - Opened by ckanag over 9 years ago - 1 comment

#27 - fix bug for axis location with missing chromosomes.

Pull Request - State: closed - Opened by Liubuntu over 9 years ago - 1 comment

#26 - subsetting to chromosome for the plot isn't working right

Issue - State: closed - Opened by ehscholl over 9 years ago - 1 comment

#25 - Error in axis (1, at=ticks)

Issue - State: closed - Opened by bdvelie over 9 years ago - 7 comments

#24 - qq function: probability plot not quantile-quantile plot

Issue - State: closed - Opened by sathishksrinivasan over 9 years ago - 1 comment

#23 - Lines

Issue - State: closed - Opened by bthada over 9 years ago - 2 comments

#22 - chrlabs for non-human data and logp not working

Issue - State: closed - Opened by renaschweizer over 9 years ago - 5 comments

#21 - Single chomosome results, x-axis compressed

Issue - State: closed - Opened by stephenturner almost 10 years ago - 6 comments

#20 - Multiple manhattan plots in the same graph.

Issue - State: closed - Opened by rslohs almost 10 years ago - 1 comment

#19 - Return of SNP annotation to manhattan.R

Issue - State: closed - Opened by sirselim about 10 years ago - 1 comment

#18 - Change x-axis ticks to Mega bases(Mb) and add colour when plotting 1 Chr.

Pull Request - State: closed - Opened by timknut about 10 years ago - 1 comment

#16 - Manhattan Plot function -- X-axis fit and Y-axis fit

Issue - State: closed - Opened by tushardave26 about 10 years ago - 7 comments

#15 - X-axis and Y- axis limit for Q-Q plot

Issue - State: closed - Opened by tushardave26 about 10 years ago - 13 comments

#14 - strange Manhattan plots

Issue - State: closed - Opened by kkleinoros over 10 years ago - 5 comments

#13 - highlight not working

Issue - State: closed - Opened by isp2 over 10 years ago - 3 comments

#12 - Re-implement confidence intervals in qq()

Issue - State: closed - Opened by stephenturner over 10 years ago - 4 comments
Labels: enhancement

#11 - default value to plot

Issue - State: closed - Opened by jessehoff over 10 years ago - 5 comments

#10 - ‘CHR column should be numeric’

Issue - State: closed - Opened by LingIPK over 10 years ago - 4 comments

#9 - plot q-values

Issue - State: closed - Opened by stephenturner over 10 years ago

#8 - Error in manhattan(results) : P column should be numeric.

Issue - State: closed - Opened by cjfiscus over 10 years ago - 3 comments

#7 - added ... to plot() in qq function

Pull Request - State: closed - Opened by timknut over 10 years ago - 1 comment

#6 - Column of text for annotation

Issue - State: closed - Opened by stephenturner almost 11 years ago - 2 comments

#5 - Code on blog post: highlight=snps_to_highlight errors

Issue - State: closed - Opened by stephenturner over 11 years ago - 7 comments
Labels: bug

#4 - slightly modified option names and passing

Pull Request - State: closed - Opened by dcapurso over 11 years ago

#3 - slightly modified option names and passing

Pull Request - State: closed - Opened by dcapurso over 11 years ago

#2 - Dev

Pull Request - State: closed - Opened by dcapurso over 11 years ago

#1 - A typo in qqman.r

Issue - State: closed - Opened by misshie over 11 years ago - 1 comment