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xavierdidelot
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ClonalFrameML
ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes
GNU General Public License v3.0
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ERROR: Number of nodes in Newick tree inconsistent with that expected
#156
xonq
closed
2 months ago
5
Correlate positions between input alignment/graphical output
#155
juliaped
closed
5 months ago
1
N/A on posterior means on the per branch model
#154
PaulineGachanja
closed
5 months ago
2
Segmentation fault after reading tree
#153
xonq
closed
5 months ago
2
option -fasta_file_list true?
#152
goshng
closed
6 months ago
1
ERROR: convert_NewickTree_to_marginal_tree(): Newick tree tip label was not expected
#151
maxibor
closed
10 months ago
2
What do you mean I don't understand the output file
#150
17863952296
closed
1 year ago
1
nonrecombinant alignment output empty
#149
lagphase
closed
1 year ago
1
Fix std::binary_function depreciation error
#148
moorembioinfo
closed
1 year ago
0
how to create the msa file for fragmented genomes
#147
jianshu93
closed
1 year ago
1
Some genomes not displaying on tree
#146
tbazilegith
closed
1 year ago
6
Script cfml_results.R not found
#145
tbazilegith
closed
1 year ago
4
Fix R/theta, 1/delta and Nu
#144
fernanda-ordonez
closed
1 year ago
0
contructed a new whole genome alignment
#143
liuxiong714
closed
1 year ago
1
Can I use SNP multiple sequence alignment matrix and a tree build based on it as inputs?
#142
CJJ8848
closed
1 year ago
5
R script plot colours are not explained
#141
sam-spence
closed
1 year ago
3
Inquiry on difference of Recombination Visualization between cfml_results.R and Phandango
#140
Tonny-zhou
closed
1 year ago
1
High recombination sequence detection
#139
conmeehan
closed
1 year ago
3
ERROR: Token: ((( Found left bracket but no right bracket
#138
ne1al
closed
1 year ago
1
Are there any detailed description of the output pdf from cfml_results.R?
#137
1996xjm
closed
1 year ago
1
std::bad_alloc problem
#136
DorothyTamYiLing
closed
1 year ago
1
Is it better to order genes by the reference genome for a xmfa file ???
#135
yayahoho1
closed
2 years ago
2
why the r/m I calculated is so small using a subclone of subclone of klebsiella pneumoniae
#134
xuechunxu
closed
2 years ago
1
Recombination filtered output vs importation_status.txt
#133
raufs
closed
2 years ago
1
R values for calculation of R*delta
#132
cbreusing
closed
2 years ago
2
how to calculate the r/m value for subclade of a tree？
#131
Tonny-zhou
closed
2 years ago
4
segmentation fault (core dumped)
#130
annarerra
closed
2 years ago
1
input alignment for ClonalFrameML
#129
annarerra
closed
2 years ago
1
How to solve problems about "makefile", Thanks a lot!
#128
nolan12333
closed
2 years ago
2
ClonalFrameML for analyses of gene families
#127
juliaped
closed
3 years ago
2
node labels
#126
annarerra
closed
3 years ago
2
ERROR: incompatible with a bifurcating unrooted tree
#125
LeonardosMageiros
closed
3 years ago
1
convert_NewickTree_to_marginal_tree()
#124
ga23981
closed
3 years ago
2
Recombination events total
#123
martinastoycheva
closed
3 years ago
1
Question: xmfa format?
#122
nbawe
closed
3 years ago
7
xmfa format question; error: Segmentation fault (core dumped)
#121
agor0
closed
3 years ago
1
cfml_results.R error
#120
maguileraf
closed
3 years ago
8
Question: r/m calculation with CI95%!
#119
maesaar
closed
3 years ago
4
Question: Concatenated sequences as input?
#118
nbawe
closed
3 years ago
7
Using Mummer output as CFML input
#117
edsonmachado
closed
3 years ago
1
Segmentation fault
#116
spencer411
closed
3 years ago
2
Can I get branch-specific values for R/Theta, 1/delta and nu from a standard CFML run?
#115
jodsikorski
closed
4 years ago
2
95% CI for r/m
#114
jodsikorski
closed
4 years ago
7
R script location
#113
martinastoycheva
closed
4 years ago
1
added ppc64le arch on yaml file.
#112
srinivas32
closed
4 years ago
0
Interpreting a long blue line in output figure
#111
megaptera-helvetiae
closed
4 years ago
1
FASTA_to_nucleotide(): unsupported base error when using .xmfa file
#110
Jwebster89
closed
4 years ago
3
different outputs with different parameters, how to choose the rihgt one?
#109
cheerupgirls
closed
4 years ago
1
Calculate nucleotide diversity within and outside the clonal frame
#108
megaptera-helvetiae
closed
4 years ago
1
Drake's rule and molecular evolution
#107
megaptera-helvetiae
closed
4 years ago
1
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