Category Archives: NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Now Available: NCBI Hidden Markov Models (HMM) Release 14.0!
Download release 14.0 of the NCBI protein profile Hidden Markov models (HMMs) used by the Prokaryotic Genome Annotation Pipeline (PGAP)! Search this collection against your favorite prokaryotic proteins to identify their function using the HMMER sequence analysis package. What’s new? Release 14.0 contains: 16,383 HMMs maintained by NCBI 252 new HMMs since release 13.0 Several … Continue reading Now Available: NCBI Hidden Markov Models (HMM) Release 14.0!
NCBI Hidden Markov Models (HMM) Release 13.0 Now Available!
Release 13.0 of the NCBI protein profile Hidden Markov models (HMMs) used by the Prokaryotic Genome Annotation Pipeline (PGAP) is now available for download. You can search this collection against your favorite prokaryotic proteins to identify their function using the HMMER sequence analysis package. What’s new? The 13.0 release contains: 16,143 HMMs maintained by NCBI … Continue reading NCBI Hidden Markov Models (HMM) Release 13.0 Now Available!
New! May 2023 Release of Stand-Alone PGAP
We are happy to announce the release of a new version of the stand-alone Prokaryotic Genome Annotation Pipeline (PGAP) with many exciting new features. Improved user interface This version has an improved user interface that takes the genome FASTA file and associated organism name directly on the command line. For example, to annotate a Vibrio … Continue reading New! May 2023 Release of Stand-Alone PGAP
NCBI Hidden Markov Models (HMM) Release 12.0 Now Available!
Release 12.0 of the NCBI protein profile Hidden Markov models (HMMs) used by the Prokaryotic Genome Annotation Pipeline (PGAP) is now available for download. You can search this collection against your favorite prokaryotic proteins to identify their function using the HMMER sequence analysis package. What’s new? The 12.0 release contains: 15,849 HMMs maintained by NCBI … Continue reading NCBI Hidden Markov Models (HMM) Release 12.0 Now Available!
NCBI hidden Markov models (HMM) release 11.0 now available!
Release 11.0 of the NCBI protein profile Hidden Markov models (HMMs) used by the Prokaryotic Genome Annotation Pipeline (PGAP) is now available for download. You can search this collection against your favorite prokaryotic proteins to identify their function using the HMMER sequence analysis package. The 11.0 release contains 15,643 HMMs maintained by NCBI, including 290 … Continue reading NCBI hidden Markov models (HMM) release 11.0 now available!
New version of PGAP now available!
We are happy to announce a new version of the stand-alone Prokaryotic Genome Annotation Pipeline (PGAP). This version helps you interpret your results by providing an estimate of the completeness and contamination of your PGAP-annotated genome assembly using CheckM. CheckM uses the presence of a set of lineage-specific genes for the species provided or the … Continue reading New version of PGAP now available!
NCBI hidden Markov models (HMM) release 10.0 now available!
Release 10.0 of the NCBI Hidden Markov models (HMM) used by the Prokaryotic Genome Annotation Pipeline (PGAP) is now available for download. You can search this collection against your favorite prokaryotic proteins to identify their function using the HMMER sequence analysis package. The 10.0 release contains 15,360 models maintained by NCBI, including 228 that are … Continue reading NCBI hidden Markov models (HMM) release 10.0 now available!
Come see NCBI at the ASM Microbe Conference 2022
The American Society of Microbiology (ASM) Microbe conference is back, and scheduled to take place in-person, June 9th-13th in Washington, D.C. NCBI staff member Dr. Michael Feldgarden will be recognized by ASM with an award for his research. Other NCBI staff will present posters on NCBI resources and will also be available at our booth … Continue reading Come see NCBI at the ASM Microbe Conference 2022
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New in RAPT: Better taxonomic assignment and GO annotation
We are excited to announce two improvements to the Read assembly and Annotation Pipeline Tool (RAPT), which allows you to assemble genomic reads for bacterial or archaeal isolates and annotate their genes at the click of a button. Improved taxonomic assignment Now RAPT verifies the scientific name you provide with the reads, and corrects it … Continue reading New in RAPT: Better taxonomic assignment and GO annotation
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NCBI hidden Markov models (HMM) release 8.0 now available!
Release 8.0 of the NCBI Hidden Markov models (HMM), used by the Prokaryotic Genome Annotation Pipeline (PGAP), is now available for download. You can search this collection against your favorite prokaryotic proteins to identify their function using the HMMER sequence analysis package. The 8.0 release contains 15,358 models, including 160 that are new since 7.0. … Continue reading NCBI hidden Markov models (HMM) release 8.0 now available!
The post NCBI hidden Markov models (HMM) release 8.0 now available! appeared first on NCBI Insights.