lh3/psmc issues and pull requests

#61 - Empty .psmcfa File

Issue - State: open - Opened by Rashed-shou 3 months ago - 3 comments

#60 - Input data

Issue - State: open - Opened by paul-bio 5 months ago

#59 - problem with psmc_plot.pl

Issue - State: open - Opened by cyadrogarcia 6 months ago - 1 comment

#59 - problem with psmc_plot.pl

Issue - State: open - Opened by cyadrogarcia 6 months ago - 1 comment

#58 - Fraction of hets missed due to low coverage

Issue - State: open - Opened by aguilar-gomez 8 months ago

#57 - A straight line in result figure.

Issue - State: open - Opened by se420 11 months ago - 1 comment

#56 - Input file: Resequence.BAM file Select type?

Issue - State: open - Opened by wuyh0328 12 months ago

#55 - Error while running Plot

Issue - State: open - Opened by lpabonv about 1 year ago - 3 comments

#54 - Assembly on scaffold level

Issue - State: open - Opened by Meer9234 about 1 year ago

#53 - Can't set mutation rate when plotting

Issue - State: open - Opened by jacquelinemattos about 1 year ago

#52 - How to plot multiple boostrap results in one image?

Issue - State: open - Opened by cnxiaobo94 over 1 year ago - 5 comments

#51 - hmm error

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

#50 - About the selection of reference genome

Issue - State: open - Opened by cnxiaobo94 over 1 year ago - 1 comment

#49 - Cannot run psmc code

Issue - State: open - Opened by shadowtwinkle about 2 years ago - 1 comment

#48 - Genome masking

Issue - State: open - Opened by Larissa-Arantes about 2 years ago - 1 comment

#47 - Add CI based on Github Actions

Pull Request - State: open - Opened by martin-g about 2 years ago - 1 comment

#46 - Segmentation fault (core dumped)

Issue - State: open - Opened by kavazquez over 2 years ago - 3 comments

#45 - How to check the recombination event?

Issue - State: open - Opened by DuttaAnik over 2 years ago - 5 comments

#44 - [Question] Is Linux ARM64 a supported architecture?

Issue - State: open - Opened by gancho-ivanov over 2 years ago - 3 comments

#43 - Bootstrapping running into erorr 'Use of uninitialized value in division (/)'

Issue - State: open - Opened by elizeng over 2 years ago - 2 comments

#42 - Old pipeline deprecated, using bcftools consensus instead?

Issue - State: open - Opened by elizeng over 2 years ago - 3 comments

#41 - Generating SAM file using ONT long-reads and Minimap2

Issue - State: closed - Opened by sjfleck almost 3 years ago - 1 comment

#40 - psmc: cli.c:72: psmc_parse_pattern: Assertion `isdigit(p) || p == '' || p == '+' || *p == '\0'' failed.

Issue - State: open - Opened by kuangzhuoran almost 3 years ago - 1 comment

#39 - "Illegal division by zero" when executig psmc.plot.pl - sample.psmc file with NaNs

Issue - State: open - Opened by AliceIob about 3 years ago - 8 comments

#38 - gen_raw_mask.pl not working correctly

Issue - State: open - Opened by nicolasalexandre21 about 3 years ago - 3 comments

#37 - Sudden increases in Ne

Issue - State: open - Opened by plubbe about 3 years ago - 3 comments

#36 - pseudo-diploid

Issue - State: open - Opened by 7melo7 about 3 years ago - 1 comment

#35 - Atomic time interval parameters

Issue - State: open - Opened by plubbe over 3 years ago - 3 comments

#34 - There is no plot

Issue - State: open - Opened by Karimi-81 over 3 years ago - 1 comment

#33 - problem when plotting

Issue - State: open - Opened by gubrins over 3 years ago - 4 comments

#32 - Empty .psmcfa file

Issue - State: open - Opened by JuliaLopezDelgado over 3 years ago - 10 comments

#31 - when I run psmc_plot.pl,met a problem

Issue - State: open - Opened by kuangzhuoran over 3 years ago

#30 - Not issues and a question

Issue - State: open - Opened by dongyiyi almost 4 years ago - 2 comments

#29 - error --min-ac -

Issue - State: open - Opened by rgolira almost 4 years ago - 2 comments

#28 - PSMC wrong

Issue - State: open - Opened by zhoutinggan about 4 years ago - 3 comments

#27 - Uservoice

Issue - State: open - Opened by Mvwestbury about 4 years ago - 1 comment

#26 - combining two plots

Issue - State: open - Opened by davidaray about 4 years ago - 11 comments

#25 - psmc_plot.pl error

Issue - State: open - Opened by chenqing-1996 about 4 years ago - 5 comments

#24 - Can anyone help me optimizing mutation rate for PSMC outfile

Issue - State: closed - Opened by SuPrSh about 4 years ago

#23 - psmc plot for reference individual looks different?

Issue - State: open - Opened by eggomez about 4 years ago - 1 comment

#22 - Error while running psmc_plot.pl

Issue - State: open - Opened by agesantos over 4 years ago - 4 comments

#21 - outfile is abnormal

Issue - State: open - Opened by shiyi-pan over 4 years ago - 2 comments

#20 - Confidence interval for PSMC

Issue - State: open - Opened by Homap over 4 years ago

#19 - PSMC plot using psmc_plot.pl

Issue - State: open - Opened by xgdong over 4 years ago

#18 - Use of initialized value in division line 125

Issue - State: open - Opened by jennagrimshaw over 4 years ago - 2 comments

#17 - recommended min and max for vcfutils.pl step

Issue - State: open - Opened by sjfleck over 4 years ago

#16 - scale x by generation?

Issue - State: open - Opened by davidaray over 4 years ago - 1 comment

#15 - Conspecific reference genome

Issue - State: open - Opened by davidaray over 4 years ago - 1 comment

#14 - Newer versions of samtools?

Issue - State: closed - Opened by plubbe almost 5 years ago

#13 - Confusing typo in the REAME file

Issue - State: open - Opened by willyrv almost 5 years ago - 1 comment

#12 - Reads used for analysis

Issue - State: open - Opened by kazuaki0816 about 5 years ago

#11 - Use PSMC for a genome assembly constructed from genomic DNAs of multiple individuals

Issue - State: closed - Opened by kazuaki0816 about 5 years ago - 1 comment

#10 - Posterior Probabilities

Issue - State: open - Opened by djlduckett about 5 years ago

#9 - Can I use the whole genome sequence to run PSMC

Issue - State: closed - Opened by liugang9988 over 5 years ago

#8 - issues with samtools mpilup

Issue - State: closed - Opened by akinyanju over 6 years ago - 3 comments

#7 - Erroneous Result（Straight line）

Issue - State: open - Opened by YingLi13 almost 7 years ago - 3 comments

#6 - sample files for each step?

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

#5 - N_O formula

Issue - State: open - Opened by mariesuez over 8 years ago

#4 - Rho and theta zero

Issue - State: open - Opened by lauscherin almost 9 years ago - 7 comments

#3 - Average over multiple psmc plots for population

Issue - State: open - Opened by jlrf98 over 9 years ago - 4 comments

#2 - error in README

Issue - State: open - Opened by jlrf98 over 9 years ago - 1 comment

#1 - Missing LICENSE file

Issue - State: closed - Opened by bmpvieira over 10 years ago - 2 comments

GitHub / lh3/psmc issues and pull requests