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Combined display of all available logs of Research Computing Center Wiki. You can narrow down the view by selecting a log type, the username (case-sensitive), or the affected page (also case-sensitive).

• 13:16, 6 May 2026 Shtsai talk contribs deleted page Prokka-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 1.13 === Author / Distributor === [http://www.vicbioinformatics.com/software.prokka.shtml prokka] === Description === "Prokka is a software tool for the rapid annotation of prokaryotic genomes.". More details are at [http://ww...", and the only contributor was "Shtsai" (talk))
• 13:15, 6 May 2026 Shtsai talk contribs deleted page LADR-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Other === Category === Other === Program On === Teaching === Version === 2009-11A === Author / Distributor === Please see https://www.cs.unm.edu/~mccune/mace4/ === Description === LADR is a command-line version of Prover9, Mace4, and other programs. Prover9 is an automated theorem prover for first-order and equation...", and the only contributor was "Shtsai" (talk))
• 13:15, 6 May 2026 Shtsai talk contribs deleted page Miniasm-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 0.3 === Author / Distributor === [https://github.com/lh3/miniasm miniasm] === Description === "Miniasm is a very fast OLC-based de novo assembler for noisy long reads." More details are at [https://github.com/lh3/miniasm miniasm...", and the only contributor was "Shtsai" (talk))
• 13:14, 6 May 2026 Shtsai talk contribs deleted page OrthoFinder-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 2.1.2 === Author / Distributor === [https://github.com/davidemms/OrthoFinder OrthoFinder] === Description === "OrthoFinder is a fast, accurate and comprehensive analysis tool for comparative genomics. It finds orthologues and...", and the only contributor was "Yhuang" (talk))
• 13:14, 6 May 2026 Shtsai talk contribs deleted page Picard-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 2.16.0 === Author / Distributor === [http://sourceforge.net/projects/picard picard] === Description === "A set of tools (in Java) for working with next generation sequencing data in the BAM format." More details are at [http:/...", and the only contributor was "Yhuang" (talk))
• 13:13, 6 May 2026 Shtsai talk contribs deleted page Megam-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Other === Category === Other === Program On === Teaching === Version === 0.92 === Author / Distributor === Please see http://users.umiacs.umd.edu/~hal/megam/ === Description === From http://users.umiacs.umd.edu/~hal/megam/: "MEGA Model Optimization Package: Maximum entropy models are very popular, especially in natu...", and the only contributor was "Shtsai" (talk))
• 13:13, 6 May 2026 Shtsai talk contribs deleted page Kallisto-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 0.43.1, 0.46.0 === Author / Distributor === Nicolas Bray, Harold Pimentel, Páll Melsted and Lior Pachter [https://pachterlab.github.io/kallisto Kallisto] === Description === kallisto is a program for quantifying abundanc...", and the only contributor was "Shtsai" (talk))
• 13:13, 6 May 2026 Shtsai talk contribs deleted page MatLab-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:OtherCategory:ProgrammingCategory:Graphics === Category === Other, Programming, Graphics === Program On === Teaching === Version === R2018b (9.5.0.944444) === Author / Distributor === The MathWorks (see http://www.mathworks.com) === Description === Matlab is a high-level technical computing language a...", and the only contributor was "Shtsai" (talk))
• 13:13, 6 May 2026 Shtsai talk contribs deleted page Maker-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 2.31.9 === Author / Distributor === [http://www.yandell-lab.org/software/index.html Yandell-lab] === Description === More details from http://gmod.org/wiki/MAKER_Tutorial#What_does_MAKER_do.3F MAKER is an easy-to-use geno...", and the only contributor was "Yhuang" (talk))
• 13:12, 6 May 2026 Shtsai talk contribs deleted page MUMmer-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 3.23 === Author / Distributor === [http://mummer.sourceforge.net/ MUMmer] === Description === "MUMmer is a system for rapidly aligning entire genomes, whether in complete or draft form. AMOS makes use of it." More details are...", and the only contributor was "Yhuang" (talk))
• 13:12, 6 May 2026 Shtsai talk contribs deleted page JupyterLab-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Programming === Category === Programming === Program On === Teaching === Version === 1.2.5 === Author / Distributor === [https://jupyter.org/ JupyterLab] === Description === "JupyterLab is a web-based interactive development environment for Jupyter notebooks, code, and data." [https://jupyter.org/ JupyterLab] ===...", and the only contributor was "Moses" (talk))
• 13:12, 6 May 2026 Shtsai talk contribs deleted page Homer-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 4.9.1, 4.10, 4.11 === Author / Distributor === [http://biowhat.ucsd.edu/homer Homer] === Description === "HOMER (Hypergeometric Optimization of Motif EnRichment) is a suite of tools for Motif Discovery and ChIP-Seq analys...", and the only contributor was "Shtsai" (talk))
• 13:12, 6 May 2026 Shtsai talk contribs deleted page MAFFT-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 7.313 === Author / Distributor === [http://mafft.cbrc.jp/alignment/software/ MAFFT] === Description === "MAFFT is a multiple sequence alignment program for unix-like operating systems. It offers a range of multiple alignme...", and the only contributor was "Yhuang" (talk))
• 13:11, 6 May 2026 Shtsai talk contribs deleted page Ipyrad-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 0.7.24 === Author / Distributor === [https://ipyrad.readthedocs.io ipyrad] === Description === "ipyrad is an interactive toolkit for assembly and analysis of restriction-site associated genomic data sets (e.g., RAD, ddRAD, GB...", and the only contributor was "Yhuang" (talk))
• 13:11, 6 May 2026 Shtsai talk contribs deleted page MSG-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 0.4.9 ===Author / Distributor=== Please see https://github.com/JaneliaSciComp/msg ===Description=== The MSG application is a Multiplexed Shotgun Genotyping suite of programs. For more information, please see https://github.com/Janelia...", and the only contributor was "Shtsai" (talk))
• 13:11, 6 May 2026 Shtsai talk contribs deleted page KmerGenie-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 1.7044 === Author / Distributor === [http://kmergenie.bx.psu.edu/ KmerGenie] === Description === "KmerGenie estimates the best k-mer length for genome de novo assembly." More details are at [http://kmergenie.bx.psu.edu/ KmerGe...", and the only contributor was "Yhuang" (talk))
• 13:11, 6 May 2026 Shtsai talk contribs deleted page GeneMarkES-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 4.33 === Author / Distributor === [http://exon.gatech.edu/GeneMark/ GeneMarkES] === Description === " Gene Prediction in Eukaryotes. Novel genomes can be analyzed by the program GeneMark-ES utilizing unsupervised training." Mo...", and the only contributor was "Yhuang" (talk))
• 13:10, 6 May 2026 Shtsai talk contribs deleted page Harvest-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 1.1.2 === Author / Distributor === [https://github.com/marbl/harvest Harvest] === Description === " Harvest is a suite of core-genome alignment and visualization tools for quickly analyzing thousands of intraspecific microbial...", and the only contributor was "Yhuang" (talk))
• 13:10, 6 May 2026 Shtsai talk contribs deleted page IGV-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 2.4.4 === Author / Distributor === To cite your use of IGV in your publication: James T. Robinson, Helga Thorvaldsdóttir, Wendy Winckler, Mitchell Guttman, Eric S. Lander, Gad Getz, Jill P. Mesirov. [http://www.nature.com/nbt/journal/v29/n1/abs/nbt.1754.html Integrative Genomics Viewer. Nature Biotechnology 29, 24–26 (20...")
• 13:10, 6 May 2026 Shtsai talk contribs deleted page GET HOMOLOGUES-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 1.7.6 === Author / Distributor === [https://github.com/eead-csic-compbio/get_homologues GET_HOMOLOGUES] === Description === "a versatile software package for pan-genome analysis.". More details are at [https://github.com/eead-csic-compbio/get_homologues GET_HOMOLOGUES] === Running Program === * Version 1.7.6, installed at /u...")
• 13:09, 6 May 2026 Shtsai talk contribs deleted page GLIMMER-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 3.02b === Author / Distributor === [http://www.cbcb.umd.edu/software/glimmer/ GLIMMER] === Description === "Glimmer is a system for finding genes in microbial DNA, especially the genomes of bacteria, archaea, and viruses." Mor...", and the only contributor was "Yhuang" (talk))
• 13:08, 6 May 2026 Shtsai talk contribs deleted page GapFiller-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 2.1.1 === Author / Distributor === [https://sourceforge.net/projects/gapfiller GapFiller] === Description === "GapFiller is a seed-and-extend local assembler to fill the gap within paired reads. It can be used for both DNA an...", and the only contributor was "Yhuang" (talk))
• 13:08, 6 May 2026 Shtsai talk contribs deleted page HTSeq-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 0.9.1 ===Author / Distributor=== Simon Anders ===Description=== A framework to process and analyze data from high-throughput sequencing (HTS) assays. More information: http://www-huber.embl.de/users/anders/HTSeq/ === Runnin...", and the only contributor was "Shtsai" (talk))
• 13:07, 6 May 2026 Shtsai talk contribs deleted page GATK-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 3.8-0 === Author / Distributor === [http://www.broadinstitute.org/gatk/ GATK] === Description === "The Genome Analysis Toolkit or GATK is a software package developed at the Broad Institute to analyse next-generation resequen...", and the only contributor was "Yhuang" (talk))
• 13:07, 6 May 2026 Shtsai talk contribs deleted page DBG2OLC-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 20170208 === Author / Distributor === [https://github.com/yechengxi/DBG2OLC DBG2OLC] === Description === "DBG2OLC:Efficient Assembly of Large Genomes Using Long Erroneous Reads of the Third Generation Sequencing Technologies...", and the only contributor was "Yhuang" (talk))
• 13:07, 6 May 2026 Shtsai talk contribs deleted page GAG-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 2.0.1 === Author / Distributor === [https://genomeannotation.github.io/GAG/ GAG] === Description === "GAG - Genome Annotation Generator: Command line application to read, sanitize, annotate and modify genomic data." More details are at [https://genomeannotation.github.io/GAG/ GAG] === Running Program === The last version o...")
• 13:06, 6 May 2026 Shtsai talk contribs deleted page Exonerate-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 2.4.0 === Author / Distributor === [http://www.ebi.ac.uk/~guy/exonerate/ Exonerate] === Description === "Exonerate is a generic tool for pairwise sequence comparison. It allows you to align sequences using a many alignment mo...", and the only contributor was "Yhuang" (talk))
• 13:01, 6 May 2026 Shtsai talk contribs deleted page EMBOSS-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 6.6.0 === Author / Distributor === [http://emboss.sourceforge.net/ EMBOSS] === Description === "EMBOSS is" More details are at [http://emboss.sourceforge.net/ EMBOSS] === Running Program === The last version of this applicat...", and the only contributor was "Yhuang" (talk))
• 13:01, 6 May 2026 Shtsai talk contribs deleted page Cufflinks-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 2.2.1 === Author / Distributor === [http://cole-trapnell-lab.github.io/cufflinks/ Cufflinks] === Description === "Transcript assembly, differential expression, and differential regulation for RNA-Seq" More details are at [http...", and the only contributor was "Yhuang" (talk))
• 13:01, 6 May 2026 Shtsai talk contribs deleted page Canu-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 1.7 === Author / Distributor === [https://github.com/marbl/canu canu] === Description === "Canu is a fork of the Celera Assembler, designed for high-noise single-molecule sequencing (such as the PacBio RS II or Oxford Nanopor...", and the only contributor was "Yhuang" (talk))
• 13:00, 6 May 2026 Shtsai talk contribs deleted page BioPerl-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 1.7.1 === Author / Distributor === [http://www.bioperl.org/ BioPerl] === Description === "Bioperl is the product of a community effort to produce Perl code which is useful in biology. Examples include Sequence objects, Alignm...", and the only contributor was "Yhuang" (talk))
• 13:00, 6 May 2026 Shtsai talk contribs deleted page BWA-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 0.7.15, 0.7.17 === Author / Distributor === [http://bio-bwa.sourceforge.net/ BWA] === Description === "Burrows-Wheeler Aligner (BWA) is an efficient program that aligns relatively short nucleotide sequences against a long reference sequence such as the human genome." More details are at [http://bio-bwa.sourceforge.net/ BWA]...")
• 13:00, 6 May 2026 Shtsai talk contribs deleted page BEDTools-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 2.26.0 === Author / Distributor === [https://github.com/arq5x/bedtools2 BEDTools] === Description === "The BEDTools utilities allow one to address common genomics tasks such as finding feature overlaps and computing coverage....", and the only contributor was "Yhuang" (talk))
• 12:59, 6 May 2026 Shtsai talk contribs deleted page BCFtools-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 1.8 === Author / Distributor === [http://www.htslib.org/ BCFtools] === Description === "Samtools is a suite of programs for interacting with high-throughput sequencing data. BCFtools - Reading/writing BCF2/VCF/gVCF files and...", and the only contributor was "Yhuang" (talk))
• 12:59, 6 May 2026 Shtsai talk contribs deleted page AUGUSTUS-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 3.2.3 === Author / Distributor === [http://bioinf.uni-greifswald.de/augustus/ AUGUSTUS] === Description === "AUGUSTUS is a program that predicts genes in eukaryotic genomic sequences" More details are at [http://bioinf.uni-gre...", and the only contributor was "Yhuang" (talk))
• 12:59, 6 May 2026 Shtsai talk contribs deleted page Artemis-Teaching (content was: "Category:TeachingCategory:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Teaching === Version === 17.0.1 === Author / Distributor === [http://www.sanger.ac.uk/science/tools/artemis-comparison-tool-act Artemis] === Description === "Artemis is a free genome browser and annotation tool that allows visualisation of sequence fe...", and the only contributor was "Yhuang" (talk))
• 12:58, 6 May 2026 Shtsai talk contribs deleted page Software2 (content was: " Below is a partial list of software packages installed on Sapelo, Sapelo2, Teaching (we are in the process of adding wiki pages for more applications). To view a list of all modules installed on Sapelo2/Teaching, along with a short description, please run the following command on Sapelo2/Teaching: <pre class="gcommand"> module spider </pre> You can also use the command above to search for a specific application. For more information, please see Lmod. ==Installed Software...")
• 12:50, 6 May 2026 Shtsai talk contribs deleted page File:Python Basics v6.1.pdf
• 12:50, 6 May 2026 Shtsai talk contribs deleted page File:R Language Basics PowerPoint v2.0.1.pdf
• 12:50, 6 May 2026 Shtsai talk contribs deleted page File:R Language Basics part 2 Document v1.0.pdf
• 12:49, 6 May 2026 Shtsai talk contribs deleted page File:R Language Basics part 2 Powerpoint v1.0.pdf
• 12:49, 6 May 2026 Shtsai talk contribs deleted page File:R Language Basics Document v2.0.pdf
• 12:49, 6 May 2026 Shtsai talk contribs deleted page File:Python Language Basics II v5.1.pdf
• 12:49, 6 May 2026 Shtsai talk contribs deleted page File:Python Language Basics I v5.1.pdf
• 12:49, 6 May 2026 Shtsai talk contribs deleted page File:Perl Language Basics I Workshop v1.pdf
• 14:45, 28 April 2026 Chelsea talk contribs uploaded a new version of File:GACRC-Teaching-cluster-new-user-training-workshop-Spring2026.pdf
• 10:34, 21 April 2026 Chelsea talk contribs created page Bactopia-Sapelo2 (Created page with "Category:Sapelo2Category:SoftwareCategory:Bioinformatics == Category == Bioinformatics == Program On == Sapelo2 == Version == 3.2.0 == Author / Distributor == Please see https://bactopia.github.io/v3.1.0/ == Description == tbd == Running Program == tbd == Documentation == <pre class="gcommand"> tbd </pre> Back to Top == System == 64-bit Linux")
• 23:04, 16 April 2026 Shtsai talk contribs deleted page SignalIP-Sapelo2 (content before blanking was: "Category:Sapelo2Category:SoftwareCategory:Bioinformatics === Category === Bioinformatics === Program On === Sapelo2 === Version === 4.1f === Author / Distributor === [http://www.cbs.dtu.dk/services/SignalP SignalP] === Description === "SignalP predicts the presence and location of signal peptide cleavage sites in amino acid sequences from different organisms: Gram-positive prokaryotes, Gram-negative prokaryotes, and eukaryotes.". More detai...")
• 23:00, 16 April 2026 Shtsai talk contribs deleted page Univa Grid Engine (content was: "#REDIRECT KB:Univa Grid Engine", and the only contributor was "Curtis E. Combs Jr." (talk))
• 23:00, 16 April 2026 Shtsai talk contribs deleted page UGE Replacement (content was: "#REDIRECT KB:UGE Replacement", and the only contributor was "Jerky" (talk))