1 new commit in galaxy-central: https://bitbucket.org/galaxy/galaxy-central/changeset/128f167ce12b/ changeset: 128f167ce12b user: dan date: 2011-11-14 19:26:29 summary: Tool help updates. affected #: 4 files diff -r 4a47e724738420ce883ffb27b31e280c93ceefcd -r 128f167ce12bd5723c5a8124d1d7ea692daf240f tools/filters/secure_hash_message_digest.xml --- a/tools/filters/secure_hash_message_digest.xml +++ b/tools/filters/secure_hash_message_digest.xml @@ -35,5 +35,11 @@ This tool outputs Secure Hashes / Message Digests of a dataset using the user selected algorithms. +------ + +**Citation** + +If you use this tool in Galaxy, please cite Blankenberg D, et al. *In preparation.* + </help></tool> diff -r 4a47e724738420ce883ffb27b31e280c93ceefcd -r 128f167ce12bd5723c5a8124d1d7ea692daf240f tools/filters/wc_gnu.xml --- a/tools/filters/wc_gnu.xml +++ b/tools/filters/wc_gnu.xml @@ -62,5 +62,11 @@ #lines words characters 7499 41376 624971 +------ + +**Citation** + +If you use this tool in Galaxy, please cite Blankenberg D, et al. *In preparation.* + </help></tool> diff -r 4a47e724738420ce883ffb27b31e280c93ceefcd -r 128f167ce12bd5723c5a8124d1d7ea692daf240f tools/peak_calling/ccat_wrapper.xml --- a/tools/peak_calling/ccat_wrapper.xml +++ b/tools/peak_calling/ccat_wrapper.xml @@ -112,7 +112,7 @@ <output name="output_top_file" file="peakcalling_ccat/3.0/ccat_test_top_out_1.interval.sorted.re_match" compare="re_match" sort="true" /><output name="output_log_file" file="peakcalling_ccat/3.0/ccat_test_log_out_1.txt" /></test> - <!-- Test below gives different results on different architectures, + <!-- Test below gives different answers on different architectures, e.g.: x86_64 GNU/Linux gave an extra line (additional peak called) when compared to the version running on 10.6.0 Darwin i386 slidingWinSize was fixed to be 1000, default as per readme.txt --> @@ -140,6 +140,8 @@ **Citation** +For the underlying tool, please cite `Xu H, Handoko L, Wei X, Ye C, Sheng J, Wei CL, Lin F, Sung WK. A signal-noise model for significance analysis of ChIP-seq with negative control. Bioinformatics. 2010 May 1;26(9):1199-204. <http://www.ncbi.nlm.nih.gov/pubmed/20371496>`_ + If you use this tool in Galaxy, please cite Blankenberg D, et al. *In preparation.* </help> diff -r 4a47e724738420ce883ffb27b31e280c93ceefcd -r 128f167ce12bd5723c5a8124d1d7ea692daf240f tools/peak_calling/macs_wrapper.xml --- a/tools/peak_calling/macs_wrapper.xml +++ b/tools/peak_calling/macs_wrapper.xml @@ -231,6 +231,8 @@ **Citation** +For the underlying tool, please cite `Zhang Y, Liu T, Meyer CA, Eeckhoute J, Johnson DS, Bernstein BE, Nusbaum C, Myers RM, Brown M, Li W, Liu XS. Model-based analysis of ChIP-Seq (MACS). Genome Biol. 2008;9(9):R137. <http://www.ncbi.nlm.nih.gov/pubmed/18798982>`_ + If you use this tool in Galaxy, please cite Blankenberg D, et al. *In preparation.* </help> Repository URL: https://bitbucket.org/galaxy/galaxy-central/ -- This is a commit notification from bitbucket.org. You are receiving this because you have the service enabled, addressing the recipient of this email.