User contributions
From Ucsbgalaxy
- 17:56, 22 November 2011 (diff | hist) . . (-6) . . Talk:Newbler parameter '-a' (minimum contig length) not working (current)
- 17:55, 22 November 2011 (diff | hist) . . (+242) . . Talk:Newbler parameter '-a' (minimum contig length) not working
- 17:42, 22 November 2011 (diff | hist) . . (+353) . . Talk:Newbler parameter '-a' (minimum contig length) not working
- 16:54, 22 November 2011 (diff | hist) . . (+98) . . N Talk:Newbler parameter '-a' (minimum contig length) not working (Created page with "11/22/11: Am trying Newbler via command line now to see if -a works outside of Galaxy interface...")
- 16:53, 22 November 2011 (diff | hist) . . (+235) . . N Newbler parameter '-a' (minimum contig length) not working (Created page with "Newbler2.6 implemented in Galaxy offers the optional parameter (-a) to restrict contigs below a minimum length from showing up in AllContigs.fna. Even when set to 100, I find ma…") (current)
- 16:51, 22 November 2011 (diff | hist) . . (+65) . . Galaxy Problems to address
- 11:53, 21 November 2011 (diff | hist) . . (+4) . . Restarting Galaxy
- 11:53, 21 November 2011 (diff | hist) . . (+3) . . Restarting Galaxy
- 11:52, 21 November 2011 (diff | hist) . . (+65) . . Restarting Galaxy
- 15:39, 17 November 2011 (diff | hist) . . (+213) . . N Newbler tool doesn't assemble FASTQ files as it claims to (Created page with "Newbler2.6 is meant to be able to assemble runs from multiple platforms (FASTA from ESTs, FASTQsanger from Illumina, SFF from 454) but so far, such 'hybrid' assemblies have not f…") (current)
- 15:37, 17 November 2011 (diff | hist) . . (-1) . . Galaxy Problems to address
- 18:09, 15 November 2011 (diff | hist) . . (+518) . . N Implement NCBI's tools from SRA Toolkit (Created page with "NCBI's Trace Archive data is only available in SRA format now. NCBI offers downloadable tools to convert these files to FASTQ and other formats on local machines, but it would…") (current)
- 18:05, 15 November 2011 (diff | hist) . . (-88) . . UCSB Galaxy Documentation
- 18:04, 15 November 2011 (diff | hist) . . (-226) . . Newbler tool doesn't recognize FASTQ files as it claims to (Blanked the page)
- 18:03, 15 November 2011 (diff | hist) . . (+226) . . N Newbler tool doesn't recognize FASTQ files as it claims to (Created page with "Both Newbler assembly tools appear to accept SFF format as well as FASTA/FASTQ formats. So far, only SFF have worked. Newber could be useful for assembling datasets from multi…")
- 17:59, 15 November 2011 (diff | hist) . . (+67) . . UCSB Galaxy Documentation
- 17:57, 15 November 2011 (diff | hist) . . (+49) . . Create conversion tool for SRA files to SFF or FASTQ formats (current)
- 17:25, 15 November 2011 (diff | hist) . . (+953) . . N Create conversion tool for SRA files to SFF or FASTQ formats (Created page with "NCBI's Trace Archive data is only available in SRA format now. They offer tools to convert these files to FASTQ on local machines, but these "FASTQ" files are not recognized as …")
- 17:13, 15 November 2011 (diff | hist) . . (+67) . . UCSB Galaxy Documentation
- 14:55, 15 November 2011 (diff | hist) . . (+1,063) . . N Macroevolution URL upload (Created page with "Use URL links to upload data from Macroevolution server to Galaxy on knot. The Macroevolution directory IlluminaData and its contents can be accessed (read-only) at http://macro…") (current)
- 14:54, 15 November 2011 (diff | hist) . . (0) . . Uploading data
- 14:53, 15 November 2011 (diff | hist) . . (+1,063) . . N Macroevolution url upload (Created page with "Use URL links to upload data from Macroevolution server to Galaxy on knot. The Macroevolution directory IlluminaData and its contents can be accessed (read-only) at http://macro…")
- 14:35, 15 November 2011 (diff | hist) . . (+412) . . N Ftp upload (Created page with "Use '''ftp''' (file transfer protocol) to copy data files to knot. 1. In your unix terminal, navigate to the directory containing your data file. 2. '''ftp''' into knot. Provi…") (current)
- 14:20, 15 November 2011 (diff | hist) . . (+139) . . Scp upload
- 14:18, 15 November 2011 (diff | hist) . . (+925) . . N Scp upload (Created page with "Use '''scp''' (secure copy) to transfer datafiles to the FTP directory within Galaxy on knot. Once the files are transferred, you will see them listed under the 'Files uploaded …")
- 13:56, 15 November 2011 (diff | hist) . . (+16) . . Uploading data
- 13:55, 15 November 2011 (diff | hist) . . (+13) . . Uploading data
- 13:53, 15 November 2011 (diff | hist) . . (+2) . . Change ownership of linux files (current)
- 13:52, 15 November 2011 (diff | hist) . . (+849) . . N Change ownership of linux files (Created page with "The '''chown''' command (abbreviation for '''ch'''ange '''own'''er) is used in Unix to change the owner of a file. Usually, it can only be executed by the superuser. To get sup…")
