sPARTA Release v1.27

Enhancements:

• Fully compatible with Amazon EC2 cloud service, see dependencies here
• Provides PARE-seq abundances from each library in the final output file All.libs.validated.uniq.csv
• Fixed an incompatibility issue related to end coordinates while usingrevFernoMap.py
• Other minor crash fixes

Find information on installation, usage and description here
Seek help or report issues here

sPARTA Release v1.25 [stable]

Enhancements:

• Better assignment of cores to improve compatibility for machines with <= 8 cores
• Fixed a bug that randomly caused a 2-nt shift in cleavage sites ( a regression) when a genome FASTA is used
• All the required input files and python libraries are now checked before starting the analysis
• Improved error handling and reporting of issues or mistakes made by the user
• Improved reverse mapping of coordinates
• Improved GFF parser

Find information on installation, usage and description here
Seek help or report issues here

sPARTA Release v1.23

• Performance and bug fixes
• miRferno is to be used through sPARTA - See README for more details

sPARTA Release v1.21

Fixed a stray rpy2 import

sPARTA Release v1.20

• sPARTA does not requires installation of pyfasta and rpy2
• Genomic co-coordinates are automatically added to the PARE validated results
• Now accepts GTF file in addition to GFF3 and FASTA input
• Dynamic cleavage site detection, which is particularly useful for sRNAs other than canonical sRNA sizes
• Target prediction can be run through sPARTA. See README for commands.
• Added a new script revFernoMap.py to generate genomic co-ordinates for predicted targets
• Fixed multiple issues for improved stability, user experience and enhanced error reporting
• See change-log at the end of script for complete list of improvements

sPARTA v1.13

Minor bug fixes
Included support for PARE libraries of variable lengths

Upcoming: miRferno will be available only as part of sPARTA from next release.