User: teresa.noviello89

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Posts by teresa.noviello89

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Comment: C: Help with Mugsy
... No, unfortunately I had always the same error and I let it go. Sorry if I can't help you ...
written 2.2 years ago by teresa.noviello890
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How to calculate GOsimilarity between different species
... Hi; I'd like to know if it is possible to calculate similarities between GO terms or genes from two different species. I know that some Bioconductor packages like GOSemSim or GOSim compute this, but it is olway intraspecie. Is it possible to do this kind of analysis inter-species? Thanks ...
similarity geneontology comparativegenomic R written 2.5 years ago by teresa.noviello890 • updated 24 months ago by e.rempel770
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Answer: A: Retrieve tissue expression in Zfin (R/python)
... Hi. I'm also interested in this. Did you find a way to retrieve tissue expression in Zfin? thanks ...
written 2.7 years ago by teresa.noviello890
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Answer: A: How to search for U3, R, U5 regions in plant LTR?
... Did you try Biomart tool? ...
written 3.3 years ago by teresa.noviello890
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Programm/tool for drawing promoter motif image
... Hi. I have a list of putative TF binding site on the promoter of a studied gene. I have both the start-end and the sequence of the matched motif on the promoter sequence. I'd like to draw an image like the one given by MatInspector (something like that https://www.google.it/search?q=matinspector& ...
image R promoter motif written 3.3 years ago by teresa.noviello890
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Help with Mugsy
... Hi. Here again another error  with mugsy. I'm trying to align the genomes of human, mouse and zebrafish for a conservation analysis. I had some problem with the installation that I have resolved but some other issues came out. HEre the error...can you help me? Thanks  ./mugsy --directory /home/no ...
alignment conservation score mugsy written 3.4 years ago by teresa.noviello890
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Comment: C: Mugsy multi alignment errors
... Ok thanks for your usefull help. I changed as you suggested with the absolute path and even if now with the printenv I obtain MUGSY_INSTALL= ./mugsy_x86-64-v1r2.3/MUMmer3.20 the errors remain the same. Any other hint? ...
written 3.4 years ago by teresa.noviello890
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Comment: C: Mugsy multi alignment errors
... Yes of course. Here the steps that I do after the download of the new version export MUGSY_INSTALL=$HOME/mugsy_x86-64-v1r2.3 source mugsy_x86-64-v1r2.3/mugsyenv.sh (when I printenv I obtain MUGSY_INSTALL=./mugsy_x86-64-v1r2.3) then I run mugsy mugsy --directory /home/noviello/prova/ hg38.fa mm1 ...
written 3.4 years ago by teresa.noviello890
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Answer: A: Mugsy multi alignment errors
... Could be a problem with the paths? ...
written 3.4 years ago by teresa.noviello890
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Comment: C: Mugsy multi alignment errors
... Hi. Thanks for your answer. Yes I installed all the required scripts and added the variable mugsyenv.sh as indicated in the reference page  but the errors remain. ...
written 3.4 years ago by teresa.noviello890

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