stschiff/msmc2

Issues

• about RCCR value > 1

  #62 opened 4 months ago by cnxiaobo94
  2

• How many samples should be used in the analysis

  #61 opened 6 months ago by enluo211
  5

• Does bam file need to be deduplicated?

  #60 opened 7 months ago by enluo211
  2

• MSMC2 -I Range violation

  #47 opened 2 years ago by bxZhang996
  6

• Baumwelch iteration not working

  #59 opened a year ago by Meer9234
  2

• Converting time boundaries into years

  #56 opened a year ago by rancilhac
  3

• Question about plotting RCCR result and -s option in cross population analysis

  #58 opened a year ago by hungweichen0327
  2

• Question about input vcf in each population

  #57 opened a year ago by hungweichen0327
  2

• strange result about the estimated cross-coalescence rate

  #54 opened a year ago by liuqi-C
  1

• Windows of equal recombination along the genome

  #55 opened a year ago by Luker121
  1

• Haploid problem

  #53 opened a year ago by cfz1998
  3

• using phased-vcf file as input for MSMC2

  #52 opened a year ago by Niloofar-Alaei
  2

• Ne explodes close to the present

  #30 opened 3 years ago by evo-eco-gen
  8

• Population selections

  #49 opened 2 years ago by cnxiaobo94
  5

• 2 vs. 4 haplotype results

  #51 opened 2 years ago by dmartche
  2

• installation error

  #48 opened 2 years ago by cnxiaobo94
  6

• Question about phasing and the cross-coalescence rate

  #50 opened 2 years ago by luisamarins
  1

• msmc2 install failed

  #46 opened 2 years ago by jayramr
  15

• conda package for msmc2

  #45 opened 2 years ago by jayramr
  1

• Problems when install the msmc2

  #33 opened 2 years ago by 7melo7
  5

• msmc2 installation problem

  #40 opened 2 years ago by 5681
  3

• wrong version displayed

  #41 opened 2 years ago by EricDeveaud
  2

• Unable to run msmc2 on a single sample

  #43 opened 2 years ago by Buffan3369
  4

• Cross-coalescence rate in multiple populations

  #44 opened 2 years ago by JohnsonStev
  1

• Out of memory issue with Cross Coalescent and weird RCC graph

  #42 opened 2 years ago by DuttaAnik
  0

• Problem running msmc2 with more than one scaffold

  #39 opened 2 years ago by micadiz
  2

• Cross-coalescence rate query

  #38 opened 3 years ago by shaferab
  10

• confusion with running cross-population annalysis

  #32 opened 3 years ago by Aannaw
  1

• Unexpected '.' when converting from type char[] to type ulong

  #35 opened 3 years ago by timmci
  6

• Phase without reference panel

  #37 opened 3 years ago by mbrieuc
  1

• Running MSMC2 on multiple unphased genomes gives Unexpected '-' when converting from type string to type ulong

  #36 opened 3 years ago by athenalql
  1

• minimum covergae for running MSMC2

  #34 opened 3 years ago by AliceIob
  1

• number haplotypes

  #31 opened 3 years ago by kmanoharan01
  2

• MSMC2: Cross Coalescent divergence time

  #29 opened 3 years ago by kmanoharan01
  12

• Number of populations

  #28 opened 3 years ago by kmanoharan01
  2

• msmc

  #27 opened 4 years ago by cfhj
  1

• Decode output issue

  #20 opened 4 years ago by marqueda
  10

• Affect of rho/mu ratio in reconstructing histories

  #23 opened 4 years ago by fredericlabbe
  1

• issues with scaffold-level data

  #26 opened 4 years ago by selasphoruskershaw
  0

• msmc-input

  #25 opened 4 years ago by cfz1998
  1

• Tutorial: output looks different

  #17 opened 4 years ago by pstokespmb
  3

• error msmc2 :estimating population separation history

  #21 opened 4 years ago by ncnlll
  6

• Odd relative cross-coalescence rate for simulated data

  #24 opened 5 years ago by marqueda
  3

• multi threads

  #14 opened 6 years ago by laurabuggiotti
  3

• msmc2 -I 4,5,6,7 error

  #15 opened 6 years ago by SC-Duan
  7

• The much higher Ne results generated by MSMC2 than that in PSMC

  #16 opened 6 years ago by yongzhiyang2012
  2

• Tutorial: unrecognized option

  #18 opened 6 years ago by pstokespmb
  1

• The abonormal values of RCCR when estimating the population splits with MSMC2

  #22 opened 6 years ago by Yun-HongWu
  1

• range violation error when providing multiple input files

  #19 opened 6 years ago by KHanghoj
  1

• number of haplotypes

  #13 opened 6 years ago by laurabuggiotti
  5