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Tue, 17 Jan 2023 09:26:57 -0800 (PST) Received: from localhost.localdomain ([193.48.40.241]) by smtp.gmail.com with ESMTPSA id p8-20020a5d4588000000b002bdfb97e029sm7274052wrq.19.2023.01.17.09.26.57 (version=TLS1_3 cipher=TLS_AES_256_GCM_SHA384 bits=256/256); Tue, 17 Jan 2023 09:26:57 -0800 (PST) From: Simon Tournier Date: Tue, 17 Jan 2023 18:26:50 +0100 Message-Id: <20230117172650.1849207-1-zimon.toutoune@gmail.com> X-Mailer: git-send-email 2.38.1 MIME-Version: 1.0 Received-SPF: pass client-ip=2a00:1450:4864:20::42f; envelope-from=zimon.toutoune@gmail.com; helo=mail-wr1-x42f.google.com X-Spam_score_int: -20 X-Spam_score: -2.1 X-Spam_bar: -- X-Spam_report: (-2.1 / 5.0 requ) BAYES_00=-1.9, DKIM_SIGNED=0.1, DKIM_VALID=-0.1, DKIM_VALID_AU=-0.1, DKIM_VALID_EF=-0.1, FREEMAIL_FROM=0.001, RCVD_IN_DNSWL_NONE=-0.0001, SPF_HELO_NONE=0.001, SPF_PASS=-0.001 autolearn=ham autolearn_force=no X-Spam_action: no action X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list X-BeenThere: guix-patches@gnu.org List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: guix-patches-bounces+patchwork=mira.cbaines.net@gnu.org Sender: guix-patches-bounces+patchwork=mira.cbaines.net@gnu.org X-getmail-retrieved-from-mailbox: Patches Hi, Here some pacakages used in Bioinformatics. Note that the package numbat comes with 'bin/pileup_and_phase.R' for preparing the data, as explained in online documentation [1]. Here, this script goes under 'site-library/numbat/bin' which does not perfectly match the online documentation mentioning 'numbat/inst/bin/' instead. 1: https://kharchenkolab.github.io/numbat/articles/numbat.html Cheers, simon Simon Tournier (4): gnu: Add python-vireosnp. gnu: Add r-scistreer. gnu: Add r-roptim. gnu: Add r-numbat. gnu/packages/bioconductor.scm | 106 +++++++++++++++++++++++++++++++- gnu/packages/bioinformatics.scm | 22 +++++++ gnu/packages/cran.scm | 23 ++++++- 3 files changed, 149 insertions(+), 2 deletions(-) base-commit: ecda67a577570f412b103e5dd8ed1a44193a9c11