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<prev • 79 results • page 1 of 3 • next >
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CODEML: Ideal setting for generating dn/ds values for a gene family within a species.
paml codeml written 5 weeks ago by venura • 60
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"Seq #20 occurs more than once in the tree" error from pam codeml analysis
phylogenetics paml codeml selection written 3 months ago by kathyd1994 • 0 • updated 3 months ago by Diana MoSa • 10
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114
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saturated dS values on selection study using codeml
saturation codeml written 5 months ago by Nunu • 0
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253
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how to use trimal to trim codon sequences
trimal alignment codeml written 9 months ago by Nunu • 0 • updated 6 months ago by Biostar ♦♦ 20
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136
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How to interpret codeml ?
hyphy meme paml codeml selection written 6 months ago by sahoo.sshree • 0
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Some problems about CODEML
positive selection sites paml codeml written 5.2 years ago by Ginsea Chen • 130 • updated 6 months ago by Biostar ♦♦ 20
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Mutation Selection test FMutSel0-M0 (Null) FMutSel-M0 (Alternative) df=0, how to do Chi square test?
paml codeml written 10 months ago by kabir.deb0353 • 10 • updated 8 months ago by Biostar ♦♦ 20
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Codon substitution model (codeml)
dnds codeml paml written 10 months ago by Chvatil • 50 • updated 8 months ago by Biostar ♦♦ 20
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Gene size and power of detection in evolutionary rates analysis
gene molecular clock paml codeml evolutionary rate written 10 months ago by pr • 10
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How can I understand Codeml assigned Internal Branch Numbers To Phylogenetic Trees from mlc file?
paml codeml written 11 months ago by kabir.deb0353 • 10
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Need help with codeml
purifying selection codeml written 12 months ago by rprog008 • 70 • updated 12 months ago by Brice Sarver • 3.5k
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1
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350
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Can i use consensus phylogenetic tree for calculation of dn/ds via codeml?
phylogenetic tree codeml positive selection written 19 months ago by rprog008 • 70
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Codeml BEB positive sites don't match amino acids in alignment
positve selection branch-site model paml codeml written 13 months ago by maggie.bartlett • 0
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dN/dS -1, in attempt to test purifying selection, CODEML PAML
paml codeml written 16 months ago by scheng25 • 10 • updated 15 months ago by Biostar ♦♦ 20
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Error: err: option file. add space around the equal sign?.
software error codeml written 17 months ago by dudka • 0 • updated 17 months ago by RamRS ♦ 30k
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CodeML Troubleshooting Help
evolution paml codeml written 5.7 years ago by p.juttyrajan • 0 • updated 18 months ago by Diana MoSa • 10
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Theory question on dN/dS values for phylogeny
dnds codeml paml written 18 months ago by DNAngel • 80
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How to identify Substitution rate is per time unit in baseml
baseml substitution rate codeml written 19 months ago by aloke205 • 40
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284
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Need help regarding hypothesis of branch model
branch-site models codeml written 19 months ago by rprog008 • 70
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How do you run codeml for two genes in one file but with 1 species tree?
paml codeml written 20 months ago by DNAngel • 80 • updated 20 months ago by shelkmike • 290
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Problem with CODEML parameters
molecular evolution codeml paml written 21 months ago by aeonswhisper • 0
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Issue with running Codeml using Biopython
paml python biopython codeml linux written 21 months ago by laurenmee17 • 0
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Help With Understanding The Output Of Codeml From The Paml Package
paml codeml selection written 10.5 years ago by Joseph Hughes • 2.8k • updated 2.2 years ago by RamRS ♦ 30k
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PAML NsSites sequence length influences significance?
nssites paml codeml written 2.2 years ago by susannak • 0
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calculating dn/ds from codeml output
codeml written 2.4 years ago by RT • 350
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Get dS numbers _per branch_ with PAML codeml (or branch length estimates)
phylogeny substitution rates paml ds codeml written 4.0 years ago by BlastedBadger • 90 • updated 2.6 years ago by al-ash • 140
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CodeML 4.9e "strange: f[132] = -0.889877 very small" messages
phylogenetic paml codeml written 2.9 years ago by Hugo • 290
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PAML CodeMl Dn/Ds help
paml codeml written 2.9 years ago by mti193 • 0
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How to analyze multiple codeml output files to find out positive gene clusters?
perl python codeml written 3.1 years ago by ThulasiS • 60
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What would be the best model to calcualte dn/ds ratio of genes of bacterial strains?
dn/ds paml codeml kaks written 3.1 years ago by ThulasiS • 60
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