Package - plasmidid

Package:  plasmidid
apt-get install plasmidid
Documentations in package:

Primary informations

Download package: http://deb.debian.org/debian/pool/main/p/plasmidid/plasmidid_1.6.5+dfsg-2_amd64.deb (Size: 46.1KiB)

PropertyValue
Packageplasmidid
Version1.6.5+dfsg-2
Installed-Size331
MaintainerDebian Med Packaging Team
Architectureamd64
Dependspython3:any, ncbi-blast+, bedtools, bowtie2, samtools, prokka, cd-hit, mash, circos
Recommendstrimmomatic, spades, python3-biopython, python3-numpy, python3-pandas
Descriptionmapping-based, assembly-assisted plasmid identification tool
Description-md5d2e67d45c872bf3607006dab611aef29
Homepagehttps://github.com/BU-ISCIII/plasmidID
Sectionscience
Priorityoptional
Filenamepool/main/p/plasmidid/plasmidid_1.6.5+dfsg-2_amd64.deb
Size47212
MD5sumfa7b528e02d2aacb387b176a5356e052
SHA256e0ec3f8d2467bd4f685d0c2c32b08c57c3cf170714b522094b657a1f11f9336f

Files in package

  • /etc/plasmidid/OR.conf
  • /etc/plasmidid/annotation_config_file.txt
  • /etc/plasmidid/circos_individual_1_3_0.conf
  • /etc/plasmidid/circos_individual_1_3_3.conf
  • /etc/plasmidid/circos_summary_1_3_0.conf
  • /etc/plasmidid/circos_summary_1_3_3.conf
  • /etc/plasmidid/simple.conf
  • /usr/bin/plasmidID
  • /usr/share/doc/plasmidid/changelog.Debian.gz
  • /usr/share/doc/plasmidid/changelog.gz
  • /usr/share/doc/plasmidid/copyright
  • /usr/share/man/man1/plasmidID.1.gz
  • /usr/share/plasmidid/bin/adapt_filter_coverage.sh
  • /usr/share/plasmidid/bin/blast_align.sh
  • /usr/share/plasmidid/bin/blast_to_bed.sh
  • /usr/share/plasmidid/bin/blast_to_complete.sh
  • /usr/share/plasmidid/bin/blast_to_link.sh
  • /usr/share/plasmidid/bin/bowtie_mapper.sh
  • /usr/share/plasmidid/bin/build_karyotype.sh
  • /usr/share/plasmidid/bin/calculate_seqlen.sh
  • /usr/share/plasmidid/bin/cdhit_cluster.sh
  • /usr/share/plasmidid/bin/check_dependencies.sh
  • /usr/share/plasmidid/bin/check_mandatory_files.sh
  • /usr/share/plasmidid/bin/coordinate_adapter.sh
  • /usr/share/plasmidid/bin/download_plasmid_database.py
  • /usr/share/plasmidid/bin/draw_circos_images.sh
  • /usr/share/plasmidid/bin/filter_fasta.sh
  • /usr/share/plasmidid/bin/get_coverage.sh
  • /usr/share/plasmidid/bin/gff_to_bed.sh
  • /usr/share/plasmidid/bin/mash_screener.sh
  • /usr/share/plasmidid/bin/mashclust.py
  • /usr/share/plasmidid/bin/ncbi_database_fetcher.sh
  • /usr/share/plasmidid/bin/process_cluster_output.sh
  • /usr/share/plasmidid/bin/prokka_annotation.sh
  • /usr/share/plasmidid/bin/quality_trim.sh
  • /usr/share/plasmidid/bin/rename_from_fasta.sh
  • /usr/share/plasmidid/bin/sam_to_bam.sh
  • /usr/share/plasmidid/bin/spades_assembly.sh
  • /usr/share/plasmidid/bin/summary_report_pid.py
  • /usr/share/plasmidid/bin/summary_table.sh
  • /usr/share/plasmidid/plasmidID
  • /usr/share/python3/runtime.d/plasmidid.rtupdate