Dear All,
I would like to get tophat-fusion-post working, apparently as many users there... This thread aiming at the lucky ones that have managed to make tophat-fusion-post working. Could you please share the tips and tricks that appear here and there in the different threads in order to have to good pratices?
Ie: is it mandatory to avoid symlinks?
The blast db must in the Top_dir with the name "blast" or "blast_human"?
Which versions of Tophat/bowtie/samtools...should be used/avoid/locally compiled?
Is there a way to concatenate a positive fusion hit in the fusions.out file with synthetic data in order to distinguish biological absence from computational digressions?
Should fusions.out contain a syntaxe like chr1-chr10 or rather 1-10?
Have some of you modified the perl code?
...and so on...
Please feel free to stack any good advices to the community and make that interesting tool free to work as happily it could be.
Many thanks and nice fusioning!
I would like to get tophat-fusion-post working, apparently as many users there... This thread aiming at the lucky ones that have managed to make tophat-fusion-post working. Could you please share the tips and tricks that appear here and there in the different threads in order to have to good pratices?
Ie: is it mandatory to avoid symlinks?
The blast db must in the Top_dir with the name "blast" or "blast_human"?
Which versions of Tophat/bowtie/samtools...should be used/avoid/locally compiled?
Is there a way to concatenate a positive fusion hit in the fusions.out file with synthetic data in order to distinguish biological absence from computational digressions?
Should fusions.out contain a syntaxe like chr1-chr10 or rather 1-10?
Have some of you modified the perl code?
...and so on...
Please feel free to stack any good advices to the community and make that interesting tool free to work as happily it could be.
Many thanks and nice fusioning!
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