Hello,
I'm trying to run the OrthoMCL pipeline and haven't had any issue until the OrthoMCL Pairs step. I have a SimilarSequences table...
13 results in 0.0022 seconds.
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OrthoMCL Pairs no output
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cross species RNA-seq/orthologs
Dear Forum,
I am completely new to RNA-seq analysis so would be very appreciative of any advice regarding my query.
I have... -
Clustering/mapping genes across de novo assemblies
Hello,
I have two different strains of the same bacteria, strain A and strain B. I assembled both of these using trinity de novo, and... -
Orthomcl Pairs error
Hello everyone,
I am trying to get orthomcl running for my non-model organism and I am using cDNA sequences for 6 species in total. I... -
Trouble with Orthomcl Clusters
I recently did analysis on over 100 genomes within the same phylum using Orthomcl. Sadly, once I finally got the results a couple of weeks later, I discovered... -
Orthomcl problems
I am trying to run Orthomcl, but when I try the first step to load the blast results into mysql (orthomclLoadBlast), I get the following error:
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Functional annotation of OrthoMCL groups?
One of the cons of OrthoMCL is "OrthoMCL groups do not have function annotations". Could someone suggest me how to annotate the OrthoMCL gr... -
Relating OrthoMCL clusters with Phylogenetics
I need to relate the OrthoMCL clusters (that I derived from comparison of several insect proteomes) with phylogenetic tree but I am not able to understand... -
SNP calling in orthologous genes rather than reads
Hi all,
I am familiar with the BWA + SAMTOOLS pipeline and how it can be used to call SNPs by comparing reads against a reference genome. In this... -
DBD::mysql::st execute failed
I am using orthomcl... and currently encountering a error at step 9 (orthomclLoadBlast)... the error says 'DBD::mysql::st execute failed: The used command... -
ERROR in DBI connect orthomclInstallSchema
Hello,
I am using orthomcl ... at the step 5 (orthomclInstallSchema) in the manual (http://orthomcl.org/common/downloads.../v2.0/UserGuid... -
Orthomcl for more then 2 species
Hi All
I have run the orthomcl for 4 species and having the orthologous pairs file and group file. I am confused that from these files... -
Orthomcl Installation
Hello there,
I would like to know if anyone has installed Orthomcl Version 4 and used it? I have been trying to use it for a longtime - no luck
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