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Hi there! @sjteresi and @teresi ,
I'm trying to reproduce the figure 7 from the original manuscript.
However, I was thinking in an simpler alternative for SynMap, like as MCscan (Python version).
…
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Hi,
I am using the version for windows using the Docker image. After running MCscan Pipeline, it does not give back any results. The download button remains "empty". It seems to be running, though. …
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I'm having this error, please help me fix this.
Thank you all
mcscan.cc:140:26: warning: ‘.collinearity’ directive writing 13 bytes into a region of size between 1 and 200 [-Wformat-overflow=]
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Thank you for developing user-friendly software.
I have written a script to automate the process after generating the blocks file by running:
python -m jcvi.compara.synteny mcscan.
This script s…
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Hi，Prof. Haibao Tang.
Thank you for developing the very useful software 'synteny.py assemble', which allows me to draw microsynteny graphs based on multiple sequences. However, I have observed that…
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I am a PhD student doing a collaborative project between Trinity College Dublin and UCLondon and am using MCScanX. I am just getting to know the tool and have been trying to use the test data availabl…
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Hello,
I have a question regarding the default implementation of MCScanX,
As the manual suggested, I first run blastp and obtained the .gff and .blast file that were used as input for MCScan. In t…
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Thanks for your help earlier - I just did not properly read the error out. The example works now, so I moved on to my own genomes. My own genomes are terrible, with very high N50s and lots of putative…
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I have done ./MCScanX dir/xyz , and draw a dot.plot successfully with the data produced from ./MCScanX. However , when I draw the fig with circle_plotter program and dual_synteny_plotte ,its make wron…
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Hi @tanghaibao,
I run the following code successfully:
python -m jcvi.graphics.synteny pma.gar.i3.blocks.miR-126.pma1.vs.gar3.large.txt pma_gar_add_pre-miRNA.sorted.bed pma.gar.i3.blocks.miR-126…