Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / Cloufield/gwaslab issues and pull requests

#107 - Incorrect SSF file extension

Issue - State: open - Opened by yassineS about 1 month ago - 1 comment
Labels: bug

#106 - Manhattan plot issue

Issue - State: closed - Opened by MC4R about 2 months ago - 10 comments
Labels: bug

#105 - adjust y axis to be equal in miami plot

Issue - State: closed - Opened by lvilarribo9 about 2 months ago - 2 comments

#104 - liftover weird behaviour

Issue - State: open - Opened by gmauro about 2 months ago - 1 comment

#103 - get_lead 'boolean value of NA' issue localising to util_in_get_sig.py

Issue - State: closed - Opened by krishnaxamin 2 months ago - 4 comments

#102 - Making merge of figures

Issue - State: open - Opened by migueep450 2 months ago - 1 comment

#101 - Abf

Pull Request - State: closed - Opened by TakeuchiYohei 3 months ago

#100 - Liftover returning only column headings

Issue - State: closed - Opened by halkelchen 4 months ago - 2 comments

#99 - Inquiry on QC and GWAS Pipeline

Issue - State: open - Opened by buer19970329 4 months ago - 6 comments

#97 - mysumstats.to_finemapping not working

Issue - State: closed - Opened by halkelchen 4 months ago - 5 comments

#96 - Effect Allele select in 2SMR

Issue - State: closed - Opened by chide-org 4 months ago - 4 comments

#95 - Question about gwas

Issue - State: open - Opened by Youpu-Chen 4 months ago - 1 comment

#94 - filter_value filters all data

Issue - State: closed - Opened by lbwfff 4 months ago - 2 comments

#93 - Installation error

Issue - State: closed - Opened by bsb2014 5 months ago - 10 comments
Labels: Installation

#92 - vcf_path in regional plot

Issue - State: open - Opened by Sheeya-Dong 5 months ago - 3 comments

#91 - Improve fix for when POS is not on ref_seq

Pull Request - State: closed - Opened by sup3rgiu 5 months ago - 1 comment

#90 - Issue on QQ plot visualization alone

Issue - State: closed - Opened by Youpu-Chen 6 months ago - 2 comments

#89 - out of memory error in basic_check()

Issue - State: open - Opened by evakoe 6 months ago - 4 comments
Labels: enhancement

#88 - Index out of bounds error in check_ref()

Issue - State: open - Opened by evakoe 6 months ago - 7 comments
Labels: bug

#87 - ImportError upon installation

Issue - State: closed - Opened by zhaiting 6 months ago - 8 comments

#86 - Add cache to speedup strand inference

Pull Request - State: closed - Opened by sup3rgiu 6 months ago - 5 comments

#85 - Fix missing logs, rename **args to **kwargs, fix typo

Pull Request - State: closed - Opened by sup3rgiu 6 months ago - 1 comment

#84 - error when setting anno="GENENAME"

Issue - State: open - Opened by Sheeya-Dong 7 months ago - 5 comments

#83 - Regional plots with LD

Issue - State: open - Opened by xEmz 7 months ago - 1 comment

#82 - installation

Issue - State: open - Opened by YijiaWu1 7 months ago - 3 comments

#81 - Fast implementation to write VCF and CSV

Pull Request - State: closed - Opened by sup3rgiu 7 months ago - 1 comment

#80 - Vectorize checkref

Pull Request - State: closed - Opened by sup3rgiu 7 months ago - 4 comments

#79 - Highlighting significant loci in the trumpet plot?

Issue - State: open - Opened by RezaJF 7 months ago - 1 comment

#78 - scikit-allel build issues

Issue - State: closed - Opened by jonathangriffiths 8 months ago - 2 comments

#77 - python version dependencies

Issue - State: closed - Opened by chenyangjjj 8 months ago - 1 comment

#76 - Regional plot: unable to plot variants correctly.

Issue - State: closed - Opened by sakuramodokich 8 months ago - 8 comments

#75 - rsID Annotation for need to be fixed

Issue - State: closed - Opened by chenyangjjj 8 months ago - 2 comments

#73 - Filtering based on lookupstatus() and check_af()

Issue - State: open - Opened by swvanderlaan 10 months ago - 4 comments

#72 - Naming convention mismatches fixed

Pull Request - State: closed - Opened by soumickmj 10 months ago - 2 comments

#71 - Highlighting significant loci

Issue - State: open - Opened by soumickmj 10 months ago - 2 comments
Labels: enhancement

#70 - arguments from manhattan don't exist in miami function

Issue - State: open - Opened by igumnov-daniel 10 months ago - 4 comments
Labels: enhancement

#69 - Bad statistics

Issue - State: closed - Opened by biomguler 11 months ago - 7 comments
Labels: bug

#68 - installation issue with 3.4.30 version

Issue - State: open - Opened by chenyangjjj 11 months ago - 4 comments
Labels: bug

#67 - plot_mqq() snpid problem

Issue - State: open - Opened by poemon 11 months ago - 1 comment

#66 - Typos

Pull Request - State: closed - Opened by gmauro 11 months ago

#65 - seed error

Issue - State: open - Opened by swvanderlaan 11 months ago - 1 comment
Labels: bug

#63 - rsid_to_chrpos failed

Issue - State: closed - Opened by chenyangjjj 11 months ago - 2 comments

#62 - error while using rsid_to_chrpos

Issue - State: open - Opened by soumickmj 11 months ago - 2 comments
Labels: bug

#61 - Lifting error

Issue - State: open - Opened by soumickmj 11 months ago - 1 comment

#60 - Error importing table to gl-format

Issue - State: open - Opened by swvanderlaan 12 months ago - 2 comments

#59 - miami image really huge

Issue - State: closed - Opened by swvanderlaan about 1 year ago - 3 comments
Labels: bug

#58 - effect size comparison

Issue - State: closed - Opened by swvanderlaan about 1 year ago - 2 comments
Labels: bug

#57 - Installation problem

Issue - State: closed - Opened by bsb2014 about 1 year ago - 2 comments

#56 - add extra parameters for pysam.tabix_index()

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

#55 - VCF export

Issue - State: open - Opened by gmauro about 1 year ago - 2 comments
Labels: bug

#54 - issue about mqqplot anno="GENENAME"

Issue - State: closed - Opened by hmutanqilong about 1 year ago - 2 comments

#53 - inferring MAF from rsid for specific population

Issue - State: closed - Opened by chenyangjjj about 1 year ago - 2 comments
Labels: enhancement

#52 - Resolving Pysam Errors During GWASLab Installation

Issue - State: open - Opened by lphotoimpact about 1 year ago - 1 comment
Labels: Installation

#51 - Assigning rsID error

Issue - State: open - Opened by lphotoimpact about 1 year ago - 2 comments
Labels: enhancement

#50 - Different highlight lists and colors

Issue - State: closed - Opened by swvanderlaan about 1 year ago - 3 comments
Labels: enhancement

#49 - Error with .plot_daf() function

Issue - State: closed - Opened by swvanderlaan about 1 year ago - 3 comments
Labels: bug

#48 - More ancestries as download option?

Issue - State: closed - Opened by swvanderlaan about 1 year ago - 6 comments
Labels: enhancement

#47 - Could not retrieve index file

Issue - State: closed - Opened by chenyangjjj about 1 year ago - 14 comments
Labels: bug

#46 - coordinate conversion and infer rsid

Issue - State: closed - Opened by chenyangjjj about 1 year ago - 1 comment

#45 - Regional plot gene name issue

Issue - State: open - Opened by soumickmj about 1 year ago - 1 comment

#44 - recombination data for hg38 is in the wrong format

Issue - State: closed - Opened by edg1983 about 1 year ago - 2 comments

#43 - gl.plot_miami : "local variable 'to_annotate5' referenced before assignment"

Issue - State: closed - Opened by chenyangjjj about 1 year ago - 8 comments
Labels: bug

#42 - Manhattan plotting issue

Issue - State: closed - Opened by swvanderlaan about 1 year ago - 5 comments
Labels: bug

#41 - Typo in `basic_check()`-log

Issue - State: closed - Opened by swvanderlaan about 1 year ago - 1 comment
Labels: documentation

#40 - Brisbane plotting error regarding 'SNPID'

Issue - State: closed - Opened by swvanderlaan about 1 year ago - 2 comments
Labels: bug

#39 - regional plot

Issue - State: closed - Opened by chenyangjjj over 1 year ago - 3 comments

#38 - Output exceeds the [size limit]

Issue - State: closed - Opened by chenyangjjj over 1 year ago - 2 comments

#37 - regional plot

Issue - State: closed - Opened by chenyangjjj over 1 year ago - 2 comments

#36 - Miami plot issue

Issue - State: open - Opened by soumickmj over 1 year ago - 8 comments

#35 - Miami plot giving error

Issue - State: closed - Opened by soumickmj over 1 year ago

#34 - Problem with expected log P in QQ plots

Issue - State: open - Opened by soumickmj over 1 year ago - 10 comments

#33 - How to save "gwaslab.Sumstats.Sumstats" object into csv/tsv file

Issue - State: closed - Opened by chenyangjjj over 1 year ago - 2 comments
Labels: documentation

#32 - Making scatter plot directly from gl object instead of going from file

Issue - State: open - Opened by michaelofrancis over 1 year ago - 2 comments
Labels: enhancement

#31 - Adding is_q=False to scatterplot introduces 'Edge_color' error

Issue - State: open - Opened by michaelofrancis over 1 year ago - 2 comments
Labels: bug

#30 - Save scatter plot

Issue - State: open - Opened by michaelofrancis over 1 year ago - 3 comments
Labels: enhancement

#29 - Regional Plot missing gene data

Issue - State: closed - Opened by XaviFar over 1 year ago - 2 comments

#28 - R2 threshold

Issue - State: closed - Opened by chenyangjjj over 1 year ago - 4 comments

#27 - Multiple sumstats ( phenotypes), single MQQ plot

Issue - State: open - Opened by soumickmj over 1 year ago - 3 comments
Labels: enhancement

#26 - m="qq" not working

Issue - State: closed - Opened by michaelofrancis over 1 year ago - 2 comments
Labels: bug

#25 - Miami plot using sumstats

Issue - State: open - Opened by soumickmj over 1 year ago - 1 comment
Labels: enhancement

#24 - Plotting multiple results in one plot

Issue - State: closed - Opened by soumickmj over 1 year ago - 2 comments

#23 - Heatmaps and other plots

Issue - State: open - Opened by soumickmj over 1 year ago - 2 comments
Labels: documentation, enhancement

#22 - Frequency correlation plot

Issue - State: open - Opened by swvanderlaan over 1 year ago - 3 comments
Labels: enhancement

#21 - Bonferroni correction

Issue - State: open - Opened by soumickmj over 1 year ago - 3 comments
Labels: enhancement

#20 - Annotate suggestive SNPs

Issue - State: closed - Opened by XaviFar over 1 year ago - 3 comments
Labels: bug

#19 - chrX Manhattan plot issue

Issue - State: closed - Opened by michaelofrancis over 1 year ago - 5 comments

#18 - getlead() cannot handle "X" as CHR value

Issue - State: closed - Opened by michaelofrancis over 1 year ago - 2 comments

#17 - New issue

Issue - State: open - Opened by Delvalle-beep over 1 year ago - 1 comment

#16 - Miami plot with no annotation throws exception

Issue - State: closed - Opened by meredjj over 1 year ago - 2 comments
Labels: bug

#15 - Multiple P values

Issue - State: open - Opened by Delvalle-beep over 1 year ago - 4 comments
Labels: enhancement

#14 - Adding support for bcf?

Issue - State: open - Opened by michaelofrancis over 1 year ago - 1 comment
Labels: enhancement

#13 - Typo in "base_pair_location" GWAS-SSF

Issue - State: closed - Opened by michaelofrancis over 1 year ago - 1 comment

#12 - More Manhattan plot issues

Issue - State: closed - Opened by michaelofrancis over 1 year ago - 10 comments

#11 - Can't get regional plot working when using data in build HG38

Issue - State: open - Opened by h-leonard over 1 year ago - 1 comment

#10 - gl.download_ref(), not clear how to use it

Issue - State: open - Opened by Delvalle-beep over 1 year ago - 5 comments

#9 - Installation problem on Windows

Issue - State: open - Opened by snowformatics over 1 year ago - 2 comments

#8 - Display issues

Issue - State: closed - Opened by michaelofrancis over 1 year ago - 6 comments