diff --git a/easybuild/easyconfigs/g/Gubbins/Gubbins-3.4.3-foss-2024a.eb b/easybuild/easyconfigs/g/Gubbins/Gubbins-3.4.3-foss-2024a.eb
new file mode 100644
index 00000000000..5281ee9e90f
--- /dev/null
+++ b/easybuild/easyconfigs/g/Gubbins/Gubbins-3.4.3-foss-2024a.eb
@@ -0,0 +1,63 @@
+# This easyconfig was created by the BEAR Software team at the University of Birmingham.
+easyblock = 'ConfigureMake'
+
+name = 'Gubbins'
+version = '3.4.3'
+
+homepage = "https://nickjcroucher.github.io/gubbins/"
+description = """Gubbins (Genealogies Unbiased By recomBinations In Nucleotide Sequences) is an algorithm that
+ iteratively identifies loci containing elevated densities of base substitutions, which are marked as recombinations,
+ while concurrently constructing a phylogeny based on the putative point mutations outside of these regions.
+ Simulations demonstrate the algorithm generates highly accurate reconstructions under realistic models of short-term
+ bacterial evolution, and can be run in only a few hours on alignments of hundreds of bacterial genome sequences."""
+
+toolchain = {'name': 'foss', 'version': '2024a'}
+
+source_urls = ['https://github.com/nickjcroucher/gubbins/archive/refs/tags/']
+sources = ['v%(version)s.tar.gz']
+checksums = ['84489fa0ac83937ee22cd338c3633f74cb4fe6525b4700290a7f69e1eaec16e7']
+
+builddependencies = [
+    ('Autotools', '20231222'),
+    ('Autoconf-archive', '2024.10.16'),
+    ('pkgconf', '2.2.0'),
+    ('Check', '0.15.2'),
+    ('subunit', '1.4.5'),
+]
+
+dependencies = [
+    ('Python', '3.12.3'),
+    ('Biopython', '1.84'),
+    ('DendroPy', '5.0.1'),
+    ('numba', '0.60.0'),
+    ('SciPy-bundle', '2024.05'),
+    ('FastTree', '2.2'),
+    ('IQ-TREE', '2.4.0'),
+    ('rapidNJ', '2.3.3'),
+    ('RAxML', '8.2.13'),
+    ('RAxML-NG', '1.2.2'),
+    ('SKA2', '0.3.7'),
+    ('dill', '0.3.9'),
+    ('multiprocess', '0.70.17'),
+]
+
+preconfigopts = "autoreconf -i && "
+# runtest = 'check'  # runs the Python tests and this causes package to be installed into the Python install
+postinstallcmds = [
+    """sed -i 's/self.executable = "iqtree"/self.executable = "iqtree2"/' python/gubbins/treebuilders.py""",
+    "cd python && python -s -m pip install --prefix %(installdir)s --no-build-isolation . "
+]
+
+sanity_check_paths = {
+    'files': ['bin/gubbins', 'lib/libgubbins.%s' % SHLIB_EXT],
+    'dirs': [],
+}
+
+sanity_check_commands = [
+    "gubbins --help",
+    "run_gubbins.py --version",
+    'python -s -c "import gubbins"',
+    'PIP_DISABLE_PIP_VERSION_CHECK=true python -s -m pip check',
+]
+
+moduleclass = 'bio'
diff --git a/easybuild/easyconfigs/r/rapidNJ/rapidNJ-2.3.3-GCCcore-13.3.0.eb b/easybuild/easyconfigs/r/rapidNJ/rapidNJ-2.3.3-GCCcore-13.3.0.eb
new file mode 100644
index 00000000000..5e74cb2c1f9
--- /dev/null
+++ b/easybuild/easyconfigs/r/rapidNJ/rapidNJ-2.3.3-GCCcore-13.3.0.eb
@@ -0,0 +1,41 @@
+# This seems to be actively maintained version of the code by the looks of it.
+# See issue #5
+# https://github.com/somme89/rapidNJ/issues/5
+# why -march=native will not be used
+# Author: J. Sassmannshausen (Imperial College London/UK)
+
+easyblock = 'MakeCp'
+
+name = 'rapidNJ'
+version = '2.3.3'
+
+homepage = 'https://github.com/somme89/rapidNJ'
+description = """RapidNJ is an algorithmic engineered implementation of canonical
+neighbour-joining. It uses an efficient search heuristic to speed-up the core
+computations of the neighbour-joining method that enables RapidNJ to
+outperform other state-of-the-art neighbour-joining implementations."""
+
+citing = """Rapid Neighbour Joining. Martin Simonsen, Thomas Mailund and Christian N. S. Pedersen.
+In: Proceedings of the 8th Workshop in Algorithms in Bioinformatics (WABI), LNBI 5251, 113-122,
+Springer Verlag, October 2008.
+doi: 10.1007/978-3-540-87361-7_10"""
+
+toolchain = {'name': 'GCCcore', 'version': '13.3.0'}
+
+source_urls = ['https://github.com/somme89/rapidNJ/archive/']
+sources = [{'filename': 'v%(version)s.tar.gz', 'download_filename': 'latest.tar.gz'}]
+checksums = ['662f864cc3e5bc68aea23129f02e0062cac9ebd37e414b54c5c5e616ff4f245d']
+
+builddependencies = [('binutils', '2.42')]
+
+files_to_copy = [(['bin/rapidnj'], 'bin')]
+
+# That is returning 1 instead of 0, so disabled for now
+# sanity_check_commands = ['rapidnj --help']
+
+sanity_check_paths = {
+    'files': ['bin/rapidnj'],
+    'dirs': [],
+}
+
+moduleclass = 'bio'
diff --git a/easybuild/easyconfigs/s/SKA2/SKA2-0.3.7-GCCcore-13.3.0.eb b/easybuild/easyconfigs/s/SKA2/SKA2-0.3.7-GCCcore-13.3.0.eb
new file mode 100644
index 00000000000..8058435a61d
--- /dev/null
+++ b/easybuild/easyconfigs/s/SKA2/SKA2-0.3.7-GCCcore-13.3.0.eb
@@ -0,0 +1,395 @@
+easyblock = 'Cargo'
+
+name = 'SKA2'
+version = '0.3.7'
+
+homepage = 'https://docs.rs/ska/latest/ska/'
+description = """Split k-mer analysis (version 2) uses exact matching of split k-mer sequences to align closely
+ related sequences, typically small haploid genomes such as bacteria and viruses."""
+
+toolchain = {'name': 'GCCcore', 'version': '13.3.0'}
+
+sources = []
+checksums = [
+    {'ska-0.3.7.tar.gz': '42febc3b657772569c9f6de9e19c3a02ec306ce1bc72d3032044ebaf6f9b23f6'},
+    {'adler-1.0.2.tar.gz': 'f26201604c87b1e01bd3d98f8d5d9a8fcbb815e8cedb41ffccbeb4bf593a35fe'},
+    {'ahash-0.8.11.tar.gz': 'e89da841a80418a9b391ebaea17f5c112ffaaa96f621d2c285b5174da76b9011'},
+    {'aho-corasick-1.1.2.tar.gz': 'b2969dcb958b36655471fc61f7e416fa76033bdd4bfed0678d8fee1e2d07a1f0'},
+    {'allocator-api2-0.2.16.tar.gz': '0942ffc6dcaadf03badf6e6a2d0228460359d5e34b57ccdc720b7382dfbd5ec5'},
+    {'anstream-0.6.13.tar.gz': 'd96bd03f33fe50a863e394ee9718a706f988b9079b20c3784fb726e7678b62fb'},
+    {'anstyle-1.0.6.tar.gz': '8901269c6307e8d93993578286ac0edf7f195079ffff5ebdeea6a59ffb7e36bc'},
+    {'anstyle-parse-0.2.3.tar.gz': 'c75ac65da39e5fe5ab759307499ddad880d724eed2f6ce5b5e8a26f4f387928c'},
+    {'anstyle-query-1.0.2.tar.gz': 'e28923312444cdd728e4738b3f9c9cac739500909bb3d3c94b43551b16517648'},
+    {'anstyle-wincon-3.0.2.tar.gz': '1cd54b81ec8d6180e24654d0b371ad22fc3dd083b6ff8ba325b72e00c87660a7'},
+    {'anyhow-1.0.81.tar.gz': '0952808a6c2afd1aa8947271f3a60f1a6763c7b912d210184c5149b5cf147247'},
+    {'argmin-0.9.0.tar.gz': '523c0b5258fa1fb9072748b7306fb0db1625cf235ec6da4d05de2560ef56f882'},
+    {'argmin-math-0.3.0.tar.gz': 'a8798ca7447753fcb3dd98d9095335b1564812a68c6e7c3d1926e1d5cf094e37'},
+    {'assert_fs-1.1.1.tar.gz': '2cd762e110c8ed629b11b6cde59458cc1c71de78ebbcc30099fc8e0403a2a2ec'},
+    {'autocfg-1.1.0.tar.gz': 'd468802bab17cbc0cc575e9b053f41e72aa36bfa6b7f55e3529ffa43161b97fa'},
+    {'bincode-1.3.3.tar.gz': 'b1f45e9417d87227c7a56d22e471c6206462cba514c7590c09aff4cf6d1ddcad'},
+    {'bit-vec-0.6.3.tar.gz': '349f9b6a179ed607305526ca489b34ad0a41aed5f7980fa90eb03160b69598fb'},
+    {'bitflags-1.3.2.tar.gz': 'bef38d45163c2f1dde094a7dfd33ccf595c92905c8f8f4fdc18d06fb1037718a'},
+    {'bitflags-2.4.2.tar.gz': 'ed570934406eb16438a4e976b1b4500774099c13b8cb96eec99f620f05090ddf'},
+    {'bstr-1.9.1.tar.gz': '05efc5cfd9110c8416e471df0e96702d58690178e206e61b7173706673c93706'},
+    {'buffer-redux-1.0.1.tar.gz': '4c9f8ddd22e0a12391d1e7ada69ec3b0da1914f1cec39c5cf977143c5b2854f5'},
+    {'bytecount-0.6.7.tar.gz': 'e1e5f035d16fc623ae5f74981db80a439803888314e3a555fd6f04acd51a3205'},
+    {'byteorder-1.5.0.tar.gz': '1fd0f2584146f6f2ef48085050886acf353beff7305ebd1ae69500e27c67f64b'},
+    {'bytes-1.5.0.tar.gz': 'a2bd12c1caf447e69cd4528f47f94d203fd2582878ecb9e9465484c4148a8223'},
+    {'bzip2-0.4.4.tar.gz': 'bdb116a6ef3f6c3698828873ad02c3014b3c85cadb88496095628e3ef1e347f8'},
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+    {'cc-1.0.90.tar.gz': '8cd6604a82acf3039f1144f54b8eb34e91ffba622051189e71b781822d5ee1f5'},
+    {'cfg-if-1.0.0.tar.gz': 'baf1de4339761588bc0619e3cbc0120ee582ebb74b53b4efbf79117bd2da40fd'},
+    {'ciborium-0.2.2.tar.gz': '42e69ffd6f0917f5c029256a24d0161db17cea3997d185db0d35926308770f0e'},
+    {'ciborium-io-0.2.2.tar.gz': '05afea1e0a06c9be33d539b876f1ce3692f4afea2cb41f740e7743225ed1c757'},
+    {'ciborium-ll-0.2.2.tar.gz': '57663b653d948a338bfb3eeba9bb2fd5fcfaecb9e199e87e1eda4d9e8b240fd9'},
+    {'clap-4.5.2.tar.gz': 'b230ab84b0ffdf890d5a10abdbc8b83ae1c4918275daea1ab8801f71536b2651'},
+    {'clap_builder-4.5.2.tar.gz': 'ae129e2e766ae0ec03484e609954119f123cc1fe650337e155d03b022f24f7b4'},
+    {'clap_derive-4.5.0.tar.gz': '307bc0538d5f0f83b8248db3087aa92fe504e4691294d0c96c0eabc33f47ba47'},
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+    {'colorchoice-1.0.0.tar.gz': 'acbf1af155f9b9ef647e42cdc158db4b64a1b61f743629225fde6f3e0be2a7c7'},
+    {'colored-2.1.0.tar.gz': 'cbf2150cce219b664a8a70df7a1f933836724b503f8a413af9365b4dcc4d90b8'},
+    {'console-0.15.8.tar.gz': '0e1f83fc076bd6dd27517eacdf25fef6c4dfe5f1d7448bafaaf3a26f13b5e4eb'},
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+    {'crossbeam-channel-0.5.12.tar.gz': 'ab3db02a9c5b5121e1e42fbdb1aeb65f5e02624cc58c43f2884c6ccac0b82f95'},
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+    {'diff-0.1.13.tar.gz': '56254986775e3233ffa9c4d7d3faaf6d36a2c09d30b20687e9f88bc8bafc16c8'},
+    {'difflib-0.4.0.tar.gz': '6184e33543162437515c2e2b48714794e37845ec9851711914eec9d308f6ebe8'},
+    {'dirs-next-2.0.0.tar.gz': 'b98cf8ebf19c3d1b223e151f99a4f9f0690dca41414773390fc824184ac833e1'},
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+    {'float-cmp-0.9.0.tar.gz': '98de4bbd547a563b716d8dfa9aad1cb19bfab00f4fa09a6a4ed21dbcf44ce9c4'},
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+    {'windows-targets-0.48.5.tar.gz': '9a2fa6e2155d7247be68c096456083145c183cbbbc2764150dda45a87197940c'},
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+    {'windows_i686_gnu-0.48.5.tar.gz': 'a75915e7def60c94dcef72200b9a8e58e5091744960da64ec734a6c6e9b3743e'},
+    {'windows_i686_gnu-0.52.4.tar.gz': 'b474d8268f99e0995f25b9f095bc7434632601028cf86590aea5c8a5cb7801d3'},
+    {'windows_i686_msvc-0.48.5.tar.gz': '8f55c233f70c4b27f66c523580f78f1004e8b5a8b659e05a4eb49d4166cca406'},
+    {'windows_i686_msvc-0.52.4.tar.gz': '1515e9a29e5bed743cb4415a9ecf5dfca648ce85ee42e15873c3cd8610ff8e02'},
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+    {'windows_x86_64_gnullvm-0.52.4.tar.gz': '77ca79f2451b49fa9e2af39f0747fe999fcda4f5e241b2898624dca97a1f2177'},
+    {'windows_x86_64_msvc-0.48.5.tar.gz': 'ed94fce61571a4006852b7389a063ab983c02eb1bb37b47f8272ce92d06d9538'},
+    {'windows_x86_64_msvc-0.52.4.tar.gz': '32b752e52a2da0ddfbdbcc6fceadfeede4c939ed16d13e648833a61dfb611ed8'},
+    {'xz2-0.1.7.tar.gz': '388c44dc09d76f1536602ead6d325eb532f5c122f17782bd57fb47baeeb767e2'},
+    {'yansi-0.5.1.tar.gz': '09041cd90cf85f7f8b2df60c646f853b7f535ce68f85244eb6731cf89fa498ec'},
+    {'zerocopy-0.7.32.tar.gz': '74d4d3961e53fa4c9a25a8637fc2bfaf2595b3d3ae34875568a5cf64787716be'},
+    {'zerocopy-derive-0.7.32.tar.gz': '9ce1b18ccd8e73a9321186f97e46f9f04b778851177567b1975109d26a08d2a6'},
+]
+
+crates = [
+    ('ska', version),
+    ('adler', '1.0.2'),
+    ('ahash', '0.8.11'),
+    ('aho-corasick', '1.1.2'),
+    ('allocator-api2', '0.2.16'),
+    ('anstream', '0.6.13'),
+    ('anstyle', '1.0.6'),
+    ('anstyle-parse', '0.2.3'),
+    ('anstyle-query', '1.0.2'),
+    ('anstyle-wincon', '3.0.2'),
+    ('anyhow', '1.0.81'),
+    ('argmin', '0.9.0'),
+    ('argmin-math', '0.3.0'),
+    ('assert_fs', '1.1.1'),
+    ('autocfg', '1.1.0'),
+    ('bincode', '1.3.3'),
+    ('bit-vec', '0.6.3'),
+    ('bitflags', '1.3.2'),
+    ('bitflags', '2.4.2'),
+    ('bstr', '1.9.1'),
+    ('buffer-redux', '1.0.1'),
+    ('bytecount', '0.6.7'),
+    ('byteorder', '1.5.0'),
+    ('bytes', '1.5.0'),
+    ('bzip2', '0.4.4'),
+    ('bzip2-sys', '0.1.11+1.0.8'),
+    ('cc', '1.0.90'),
+    ('cfg-if', '1.0.0'),
+    ('ciborium', '0.2.2'),
+    ('ciborium-io', '0.2.2'),
+    ('ciborium-ll', '0.2.2'),
+    ('clap', '4.5.2'),
+    ('clap_builder', '4.5.2'),
+    ('clap_derive', '4.5.0'),
+    ('clap_lex', '0.7.0'),
+    ('colorchoice', '1.0.0'),
+    ('colored', '2.1.0'),
+    ('console', '0.15.8'),
+    ('crc32fast', '1.4.0'),
+    ('crossbeam-channel', '0.5.12'),
+    ('crossbeam-deque', '0.8.5'),
+    ('crossbeam-epoch', '0.9.18'),
+    ('crossbeam-utils', '0.8.19'),
+    ('crunchy', '0.2.2'),
+    ('deranged', '0.3.11'),
+    ('diff', '0.1.13'),
+    ('difflib', '0.4.0'),
+    ('dirs-next', '2.0.0'),
+    ('dirs-sys-next', '0.1.2'),
+    ('doc-comment', '0.3.3'),
+    ('either', '1.10.0'),
+    ('encode_unicode', '0.3.6'),
+    ('equivalent', '1.0.1'),
+    ('errno', '0.3.8'),
+    ('fastrand', '2.0.1'),
+    ('flate2', '1.0.28'),
+    ('float-cmp', '0.9.0'),
+    ('getrandom', '0.2.12'),
+    ('globset', '0.4.14'),
+    ('globwalk', '0.9.1'),
+    ('half', '2.4.0'),
+    ('hashbrown', '0.14.3'),
+    ('heck', '0.4.1'),
+    ('hermit-abi', '0.3.9'),
+    ('ignore', '0.4.22'),
+    ('indexmap', '2.2.5'),
+    ('indicatif', '0.17.8'),
+    ('instant', '0.1.12'),
+    ('is-terminal', '0.4.12'),
+    ('itertools', '0.10.5'),
+    ('itoa', '1.0.10'),
+    ('lazy_static', '1.4.0'),
+    ('libc', '0.2.153'),
+    ('libm', '0.2.8'),
+    ('libredox', '0.0.1'),
+    ('linux-raw-sys', '0.4.13'),
+    ('log', '0.4.21'),
+    ('lzma-sys', '0.1.20'),
+    ('matrixmultiply', '0.3.8'),
+    ('memchr', '2.7.1'),
+    ('miniz_oxide', '0.7.2'),
+    ('ndarray', '0.15.6'),
+    ('needletail', '0.5.1'),
+    ('noodles-bgzf', '0.26.0'),
+    ('noodles-core', '0.14.0'),
+    ('noodles-csi', '0.30.0'),
+    ('noodles-tabix', '0.36.0'),
+    ('noodles-vcf', '0.49.0'),
+    ('normalize-line-endings', '0.3.0'),
+    ('num-complex', '0.4.5'),
+    ('num-conv', '0.1.0'),
+    ('num-integer', '0.1.46'),
+    ('num-traits', '0.2.18'),
+    ('num_cpus', '1.16.0'),
+    ('num_threads', '0.1.7'),
+    ('number_prefix', '0.4.0'),
+    ('once_cell', '1.19.0'),
+    ('paste', '1.0.14'),
+    ('percent-encoding', '2.3.1'),
+    ('pkg-config', '0.3.30'),
+    ('portable-atomic', '1.6.0'),
+    ('powerfmt', '0.2.0'),
+    ('ppv-lite86', '0.2.17'),
+    ('predicates', '2.1.5'),
+    ('predicates', '3.1.0'),
+    ('predicates-core', '1.0.6'),
+    ('predicates-tree', '1.0.9'),
+    ('pretty_assertions', '1.4.0'),
+    ('proc-macro2', '1.0.79'),
+    ('quote', '1.0.35'),
+    ('rand', '0.8.5'),
+    ('rand_chacha', '0.3.1'),
+    ('rand_core', '0.6.4'),
+    ('rand_xoshiro', '0.6.0'),
+    ('rawpointer', '0.2.1'),
+    ('rayon', '1.9.0'),
+    ('rayon-core', '1.12.1'),
+    ('redox_syscall', '0.4.1'),
+    ('redox_users', '0.4.4'),
+    ('regex', '1.10.3'),
+    ('regex-automata', '0.4.6'),
+    ('regex-syntax', '0.8.2'),
+    ('rustix', '0.38.31'),
+    ('rustversion', '1.0.14'),
+    ('ryu', '1.0.17'),
+    ('same-file', '1.0.6'),
+    ('serde', '1.0.197'),
+    ('serde_derive', '1.0.197'),
+    ('serde_json', '1.0.114'),
+    ('similar', '2.4.0'),
+    ('simple_logger', '4.3.3'),
+    ('slog', '2.7.0'),
+    ('slog-async', '2.8.0'),
+    ('slog-json', '2.6.1'),
+    ('slog-term', '2.9.1'),
+    ('snap', '1.1.1'),
+    ('snapbox', '0.4.17'),
+    ('snapbox-macros', '0.3.8'),
+    ('strsim', '0.11.0'),
+    ('syn', '2.0.52'),
+    ('take_mut', '0.2.2'),
+    ('tempfile', '3.10.1'),
+    ('term', '0.7.0'),
+    ('termtree', '0.4.1'),
+    ('thiserror', '1.0.58'),
+    ('thiserror-impl', '1.0.58'),
+    ('thread_local', '1.1.8'),
+    ('time', '0.3.34'),
+    ('time-core', '0.1.2'),
+    ('time-macros', '0.2.17'),
+    ('unicode-ident', '1.0.12'),
+    ('unicode-width', '0.1.11'),
+    ('utf8parse', '0.2.1'),
+    ('version_check', '0.9.4'),
+    ('walkdir', '2.5.0'),
+    ('wasi', '0.11.0+wasi-snapshot-preview1'),
+    ('winapi', '0.3.9'),
+    ('winapi-i686-pc-windows-gnu', '0.4.0'),
+    ('winapi-util', '0.1.6'),
+    ('winapi-x86_64-pc-windows-gnu', '0.4.0'),
+    ('windows-sys', '0.48.0'),
+    ('windows-sys', '0.52.0'),
+    ('windows-targets', '0.48.5'),
+    ('windows-targets', '0.52.4'),
+    ('windows_aarch64_gnullvm', '0.48.5'),
+    ('windows_aarch64_gnullvm', '0.52.4'),
+    ('windows_aarch64_msvc', '0.48.5'),
+    ('windows_aarch64_msvc', '0.52.4'),
+    ('windows_i686_gnu', '0.48.5'),
+    ('windows_i686_gnu', '0.52.4'),
+    ('windows_i686_msvc', '0.48.5'),
+    ('windows_i686_msvc', '0.52.4'),
+    ('windows_x86_64_gnu', '0.48.5'),
+    ('windows_x86_64_gnu', '0.52.4'),
+    ('windows_x86_64_gnullvm', '0.48.5'),
+    ('windows_x86_64_gnullvm', '0.52.4'),
+    ('windows_x86_64_msvc', '0.48.5'),
+    ('windows_x86_64_msvc', '0.52.4'),
+    ('xz2', '0.1.7'),
+    ('yansi', '0.5.1'),
+    ('zerocopy', '0.7.32'),
+    ('zerocopy-derive', '0.7.32'),
+]
+
+builddependencies = [
+    ('binutils', '2.42'),
+    ('Rust', '1.79.0'),
+]
+
+sanity_check_paths = {
+    'files': ['bin/ska'],
+    'dirs': [],
+}
+
+sanity_check_commands = ["ska --help"]
+
+moduleclass = 'bio'