SCAMPI2: Improved topology predictions using the first and last hydrophobic helix rule.
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cmdline
data
modhmm
README.md
install.sh

README.md

scampi2

Setup

  1. Clone the github repository
  2. Install modhmm
  • mkdir /tmp/build
  • cd /tmp/build
  • cmake -D CMAKE_INSTALL_PREFIX=/my/install/dir /this/source/dir
  • make
  • make install
  1. Install cmdline
  • mkdir /tmp/build
  • cd /tmp/build
  • cmake -D TARGETS="scampi;scampi-msa" -D CMAKE_PREFIX_PATH=/path/to/modhmm -D CMAKE_INSTALL_PREFIX=/my/install/dir /this/source/dir
  • make
  • make install
  1. Running
  • Scampi-Single:
    • Command: ./SCAMPI_run.pl <input_fasta> <output_file>
    • <input_fasta> can contain one or more fasta entries
  • Scampi-MSA:
    • Command: ./run_SCAMPI_multi.pl <input_fasta> <output_file> <blast_dir> <blast_db>
    • <input_fasta> can contain one (!) fasta entry