xavierdidelot/ClonalFrameML
ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes
C++GPL-3.0
Issues
- 1
- 2
Segmentation fault after reading tree
#153 opened by xonq - 2
- 1
option -fasta_file_list true?
#152 opened by goshng - 2
ERROR: convert_NewickTree_to_marginal_tree(): Newick tree tip label was not expected
#151 opened by maxibor - 1
- 1
nonrecombinant alignment output empty
#149 opened by lagphase - 1
how to create the msa file for fragmented genomes
#147 opened by jianshu93 - 6
Some genomes not displaying on tree
#146 opened by tbazilegith - 4
Script cfml_results.R not found
#145 opened by tbazilegith - 0
Fix R/theta, 1/delta and Nu
#144 opened by fernanda-ordonez - 1
contructed a new whole genome alignment
#143 opened by liuxiong714 - 5
Can I use SNP multiple sequence alignment matrix and a tree build based on it as inputs?
#142 opened by CJJ8848 - 3
R script plot colours are not explained
#141 opened by sam-spence - 1
Inquiry on difference of Recombination Visualization between cfml_results.R and Phandango
#140 opened by Tonny-zhou - 1
- 3
High recombination sequence detection
#139 opened by conmeehan - 1
- 1
std::bad_alloc problem
#136 opened by DorothyTamYiLing - 2
- 1
why the r/m I calculated is so small using a subclone of subclone of klebsiella pneumoniae
#134 opened by xuechunxu - 1
Recombination filtered output vs importation_status.txt
#133 opened by raufs - 2
R values for calculation of R*delta
#132 opened by cbreusing - 4
- 1
segmentation fault (core dumped)
#130 opened by annarerra - 1
input alignment for ClonalFrameML
#129 opened by annarerra - 2
- 2
ClonalFrameML for analyses of gene families
#127 opened by juliaped - 2
node labels
#126 opened by annarerra - 1
- 2
convert_NewickTree_to_marginal_tree()
#124 opened by ga23981 - 1
Recombination events total
#123 opened by martinastoycheva - 7
Question: xmfa format?
#122 opened by nbawe - 1
- 8
cfml_results.R error
#120 opened by maguileraf - 4
Question: r/m calculation with CI95%!
#119 opened by maesaar - 7
Question: Concatenated sequences as input?
#118 opened by nbawe - 1
Using Mummer output as CFML input
#117 opened by edsonmachado - 2
Segmentation fault
#116 opened by spencer411 - 7
95% CI for r/m
#114 opened by jodsikorski - 2
Can I get branch-specific values for R/Theta, 1/delta and nu from a standard CFML run?
#115 opened by jodsikorski - 1
R script location
#113 opened by martinastoycheva - 1
- 3
- 1
different outputs with different parameters, how to choose the rihgt one?
#109 opened by cheerupgirls - 1
Calculate nucleotide diversity within and outside the clonal frame
#108 opened by megaptera-helvetiae - 4
ClonalFrameML not producing all outputs.
#106 opened by izakbed - 1
Drake's rule and molecular evolution
#107 opened by megaptera-helvetiae - 1
- 1
importation_status.txt output clarification
#104 opened by madeleinevlt