Changelogs » Prost

Prost

0.7.49

Prost! (PRocessing Of Small Transcripts) is a python application that quantifies and annotates microRNA (miRNA) expression in metazoans with assembled genomes. Prost! works by counting short transcripts within a user-specifiable length range. These counted transcripts are aligned to a user specifiable genome allowing for post-transcriptional modification (e.g. untemplated additions, editing, alternative cutting) and then "binned" together based on genomic location. Each bin is then annotated with databases of mature miRNAs, hairpins, and other types of RNAs (the databases may be derived from miRBase, Ensembl's BioMart, other databases, or may be custom built by the user).

0.7.48

Prost! (PRocessing Of Small Transcripts) is a python application that quantifies and annotates microRNA (miRNA) expression in metazoans with assembled genomes. Prost! works by counting short transcripts within a user-specifiable length range. These counted transcripts are aligned to a user specifiable genome allowing for post-transcriptional modification (e.g. untemplated additions, editing, alternative cutting) and then "binned" together based on genomic location. Each bin is then annotated with databases of mature miRNAs, hairpins, and other types of RNAs (the databases may be derived from miRBase, Ensembl's BioMart, other databases, or may be custom built by the user).

0.7.47

Prost! (PRocessing Of Small Transcripts) is a python application that quantifies and annotates microRNA (miRNA) expression in metazoans with assembled genomes. Prost! works by counting short transcripts within a user-specifiable length range. These counted transcripts are aligned to a user specifiable genome allowing for post-transcriptional modification (e.g. untemplated additions, editing, alternative cutting) and then "binned" together based on genomic location. Each bin is then annotated with databases of mature miRNAs, hairpins, and other types of RNAs (the databases may be derived from miRBase, Ensembl's BioMart, other databases, or may be custom built by the user).

0.7.46

_Prost!_ (PRocessing Of Small Transcripts) is a python application that quantifies and annotates microRNA (miRNA) expression in metazoans with assembled genomes.  _Prost!_ works by counting short transcripts within a user-specifiable length range.  These counted transcripts are aligned to a user specifiable genome allowing for post-transcriptional modification (e.g. untemplated additions, editing, alternative cutting) and then "binned" together based on genomic location.  Each bin is then annotated with databases of mature miRNAs, hairpins, and other types of RNAs (the databases may be derived from miRBase, Ensembl's BioMart, other databases, or may be custom built by the user).

0.7.45

_Prost!_ (PRocessing Of Small Transcripts) is a python application that quantifies and annotates microRNA (miRNA) expression in metazoans with assembled genomes.  _Prost!_ works by counting short transcripts within a user-specifiable length range.  These counted transcripts are aligned to a user specifiable genome allowing for post-transcriptional modification (e.g. untemplated additions, editing, alternative cutting) and then "binned" together based on genomic location.  Each bin is then annotated with databases of mature miRNAs, hairpins, and other types of RNAs (the databases may be derived from miRBase, Ensembl's BioMart, other databases, or may be custom built by the user).

0.7.42

_Prost!_ (PRocessing Of Small Transcripts) is a python application that quantifies and annotates microRNA (miRNA) expression in metazoans with assembled genomes.  _Prost!_ works by counting short transcripts within a user-specifiable length range.  These counted transcripts are aligned to a user specifiable genome allowing for post-transcriptional modification (e.g. untemplated additions, editing, alternative cutting) and then "binned" together based on genomic location.  Each bin is then annotated with databases of mature miRNAs, hairpins, and other types of RNAs (the databases may be derived from miRBase, Ensembl's BioMart, other databases, or may be custom built by the user).

0.7.35

_Prost!_ (PRocessing Of Small Transcripts) is a python application that quantifies and annotates microRNA (miRNA) expression in metazoans with assembled genomes.  _Prost!_ works by counting short transcripts within a user-specifiable length range.  These counted transcripts are aligned to a user specifiable genome allowing for post-transcriptional modification (e.g. untemplated additions, editing, alternative cutting) and then "binned" together based on genomic location.  Each bin is then annotated with databases of mature miRNAs, hairpins, and other types of RNAs (the databases may be derived from miRBase, Ensembl's BioMart, other databases, or may be custom built by the user).

0.7.34

_Prost!_ (PRocessing Of Small Transcripts) is a python application that quantifies and annotates microRNA (miRNA) expression in chordates and vertebrates with assembled genomes. _Prost!_ works by counting short transcripts within a user-specifiable length range. These counted transcripts are aligned to a user specifiable genome allowing for post-transcriptional modification (e.g. untemplated additions, editing, alternative cutting) and then “binned” together based on genomic location. Each bin is then annotated with miRBase mature sequences and hairpins, as well as other types of RNA obtained from Ensembl’s Biomart.

0.7.31

_Prost!_ (PRocessing Of Small Transcripts) is a python application that quantifies and annotates microRNA (miRNA) expression in chordates and vertebrates with assembled genomes. _Prost!_ works by counting short transcripts within a user-specifiable length range. These counted transcripts are aligned to a user specifiable genome allowing for post-transcriptional modification (e.g. untemplated additions, editing, alternative cutting) and then “binned” together based on genomic location. Each bin is then annotated with miRBase mature sequences and hairpins, as well as other types of RNA obtained from Ensembl’s Biomart.

0.7.29

This is a release of _Prost!_ to be tagged with a DOI by Zenodo, so that _Prost!_ is citable.

0.7.27

This release of _Prost!_ includes a possible fix to reduce memory consumption for certain data sets.  Specifically, by setting the `max_locations_allowed` configuration option (default 40), then for any sequence which hits to the genome more than `max_locations_allowed` times, that sequence's genomic_locations not recorded (they are reported as **MAL** (i.e. maximum allowed locations)).

0.7.9

A small fix to allow _Prost!_ to handle cases where the best alignment to the reference genome overlaps a region with 'N's.

0.7.6

This is the stable release of _Prost!_.

0.7.5

This is the initial release of _Prost!_.