Package: pourrna Version: 1.1.0-1 Architecture: amd64 Maintainer: Gregor Entzian Installed-Size: 1798 Depends: libc6 (>= 2.29), libgcc1 (>= 1:3.0), libstdc++6 (>= 9), viennarna-dev (>= 2.4.11) Conflicts: pourrna Provides: pourrna Filename: ./amd64/pourrna_1.1.0-1_amd64.deb Size: 253728 MD5sum: 0255a54f549f0ef7d670ea63a5939d9c SHA1: b9f6d70bdb000a815d27a375c8fd10f29fdc66cd SHA256: 56cf5d0cb2846b568bea0ede4551663cfe0658a4964c5e179e0842fb303fe9fd Section: science Priority: optional Description: Compute local minima and respective transition rates of an RNA energy landscape. pourRNA takes an RNA sequence as input and explores the landscape topology locally. This means the flooding algorithm will be applied for each gradient basin. The partition function for the basin and also for the transitions to neighbored minima will be calculated during the flooding. In order to speed up the computation of the rate matrix, local filtering techniques can be applied. These filters prune non-relevant transitions directly after flooding a gradient basin. As a result, the transition rates for the filtered landscape topology can be calculated faster than with global approaches. The advantage increases with increasing size of the energy landscape. Package: pourrna Version: 1.2.0-1 Architecture: amd64 Maintainer: Gregor Entzian Installed-Size: 1798 Depends: libc6 (>= 2.29), libgcc1 (>= 1:3.0), libstdc++6 (>= 9), viennarna-dev (>= 2.4.11) Conflicts: pourrna Provides: pourrna Filename: ./amd64/pourrna_1.2.0-1_amd64.deb Size: 254772 MD5sum: 43928d48d4d8926dcece5e5e4aafab29 SHA1: a9ef9bf654073e60e7a39c9b23f1877d863d5206 SHA256: eab3691b3e3b671468f5276f7b09c33f86e6cb207d614a1f5796a414ff563c1e Section: science Priority: optional Description: Compute local minima and respective transition rates of an RNA energy landscape. pourRNA takes an RNA sequence as input and explores the landscape topology locally. This means the flooding algorithm will be applied for each gradient basin. The partition function for the basin and also for the transitions to neighbored minima will be calculated during the flooding. In order to speed up the computation of the rate matrix, local filtering techniques can be applied. These filters prune non-relevant transitions directly after flooding a gradient basin. As a result, the transition rates for the filtered landscape topology can be calculated faster than with global approaches. The advantage increases with increasing size of the energy landscape. Package: python3-rnaxplorer Source: rnaxplorer Version: 0.9.0 Architecture: amd64 Maintainer: Gregor Entzian Installed-Size: 8 Depends: python3 Conflicts: python3-rnaxplorer Filename: ./amd64/python3-rnaxplorer_0.9.0_amd64.deb Size: 1764 MD5sum: 740bdeba68d4612092868e427082a638 SHA1: 84518269fef4bc69a248dcb9b04153f249d363aa SHA256: eca7a8fe7a829dd2554b6180d0a7bd7753d4c3f8a002f7e47af9ad64a34c189c Section: python Priority: optional Description: Python 3 bindings to RNAxplorerlib The RNAxplorer class to access RNAxplorerlib C-library functions from within Python 3 scripts Package: rnaxplorer Version: 0.9.0 Architecture: amd64 Maintainer: Gregor Entzian Installed-Size: 8 Depends: viennarna-dev (>= 2.4.14) Recommends: python-rnaxplorer Conflicts: rnaxplorer Provides: rnaxplorer Filename: ./amd64/rnaxplorer_0.9.0_amd64.deb Size: 1880 MD5sum: 81173326b4aaa3240f50afb1b07c60cd SHA1: 06d028bd4a3e6cda4a84c95be024e40d43d280be SHA256: 38ec03af1f11327565f9bfc228f6632e0cd38ba21fbad2f0c57a4120287fce22 Section: science Priority: optional Description: Sample RNA secondary structures and explore the RNA energy landscape. RNAxplorer takes an RNA sequence as input and samples secondary structures that represent the most important structures of the RNA conformation space and thus are well suited to compute RNA folding kinetics.