User contributions
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Jump to navigationJump to search- 18:01, 11 May 2010 diff hist +67 BamUtil
- 17:59, 11 May 2010 diff hist +1,301 BamUtil
- 17:53, 11 May 2010 diff hist +160 LibStatGen: BAM
- 17:52, 11 May 2010 diff hist +226 LibStatGen: BAM →Classes in the BAM/SAM Library
- 17:22, 11 May 2010 diff hist +88 LibStatGen: BAM →Classes in the BAM/SAM Library
- 17:19, 11 May 2010 diff hist +271 C++ Class: SamRecord
- 16:22, 11 May 2010 diff hist +71 LibStatGen: BAM
- 16:20, 11 May 2010 diff hist +510 C++ Class: SamFileHeader
- 16:06, 11 May 2010 diff hist +11 C++ Class: SamFile
- 16:05, 11 May 2010 diff hist +4,004 C++ Class: SamFile
- 14:57, 11 May 2010 diff hist +1,105 C++ Class: SamFile
- 10:52, 11 May 2010 diff hist +259 C++ Class: SamFile
- 13:56, 7 May 2010 diff hist -17 SAM Validation Criteria
- 13:33, 7 May 2010 diff hist +10 SAM Validation Criteria
- 13:34, 6 May 2010 diff hist +298 C++ Class: FastQFile
- 13:31, 6 May 2010 diff hist +35 C++ Library: FASTQ Change Log
- 13:30, 6 May 2010 diff hist +284 C++ Library: FASTQ Change Log
- 17:48, 3 May 2010 diff hist +240 C++ Library: general Change Log
- 17:27, 3 May 2010 diff hist +990 N C++ Class: InputFile Created page with '= InputFile / IFILE = This is our class for file operations. It hides the underlying file structure from the user. That way code can generically open and operate on a file usin…'
- 16:43, 3 May 2010 diff hist +2 LibStatGen: general
- 16:43, 3 May 2010 diff hist +392 LibStatGen: general
- 12:14, 3 May 2010 diff hist +101 C++ Class: SamRecord
- 10:27, 3 May 2010 diff hist +596 C++ Class: SamRecord
- 16:34, 30 April 2010 diff hist +102 C++ Library: FASTQ Change Log
- 17:53, 28 April 2010 diff hist +20 SAM Validation Criteria →BamFile Classes
- 16:33, 28 April 2010 diff hist 0 Main Page →Sequence Analysis Tools
- 16:33, 28 April 2010 diff hist +31 Main Page →Sequence Analysis Tools
- 16:31, 28 April 2010 diff hist +136 C++ Class: SamRecord →Retrieving fields from a SAM/BAM Record
- 19:27, 20 April 2010 diff hist -1 LibStatGen: BAM
- 19:26, 20 April 2010 diff hist +139 LibStatGen: BAM
- 19:09, 20 April 2010 diff hist +5,621 C++ Class: SamFileHeader
- 18:41, 20 April 2010 diff hist +4,875 C++ Class: SamFileHeader
- 18:30, 16 April 2010 diff hist +449 SAM Validation Criteria
- 10:35, 15 April 2010 diff hist +139 C++ Library: FASTQ Change Log
- 10:33, 15 April 2010 diff hist +31 FastQValidator →Optional Space Options for Raw Sequence (Last one specified is used)
- 10:32, 15 April 2010 diff hist +4 FastQ Validation Criteria
- 10:32, 15 April 2010 diff hist +57 FastQ Validation Criteria
- 10:31, 15 April 2010 diff hist -54 FastQValidator
- 10:30, 15 April 2010 diff hist -1 FastQ Validation Criteria
- 10:29, 15 April 2010 diff hist +201 FastQ Validation Criteria
- 10:26, 15 April 2010 diff hist -3,234 C++ Class: FastQFile
- 10:26, 15 April 2010 diff hist +3,303 N FastQ Validation Criteria Created page with '== FastQ Sequence Validation Criteria == {| class="wikitable" style="width:100%" |+ style="font-size:150%" |'''Sequence Identifier Line''' ! width="50%"|Validation Criteria ! …'
- 10:24, 15 April 2010 diff hist +90 FastQValidator
- 12:43, 13 April 2010 diff hist +45 SAM Validation Criteria →Other Read Validation
- 09:48, 13 April 2010 diff hist +157 C++ Class: SamFileHeader →Proposed Accessors
- 18:58, 12 April 2010 diff hist +505 C++ Class: SamFileHeader
- 18:13, 12 April 2010 diff hist +344 C++ Library: FASTQ Change Log
- 16:06, 12 April 2010 diff hist -18 C++ Class: SamRecord
- 17:50, 7 April 2010 diff hist +631 C++ Library: FASTQ Change Log
- 10:42, 7 April 2010 diff hist +290 FastQValidator
- 20:07, 6 April 2010 diff hist +55 C++ Class: SamRecord
- 20:06, 6 April 2010 diff hist +55 C++ Class: SamFileHeader
- 20:06, 6 April 2010 diff hist +54 C++ Class: SamFile
- 20:03, 6 April 2010 diff hist -29 C++ Class: SamFile
- 19:57, 6 April 2010 diff hist +136 LibStatGen: BAM
- 19:51, 6 April 2010 diff hist +70 Main Page
- 19:50, 6 April 2010 diff hist +49 N Talk:FastQ Validator moved Talk:FastQ Validator to Talk:C++ Executable: fastQValidator current
- 19:50, 6 April 2010 diff hist 0 m Talk:FastQValidator moved Talk:FastQ Validator to Talk:C++ Executable: fastQValidator
- 19:50, 6 April 2010 diff hist +44 N FastQ Validator moved FastQ Validator to C++ Executable: fastQValidator current
- 19:50, 6 April 2010 diff hist 0 m FastQValidator moved FastQ Validator to C++ Executable: fastQValidator
- 18:35, 6 April 2010 diff hist 0 C++ Library: general Change Log
- 18:35, 6 April 2010 diff hist +278 C++ Library: general Change Log
- 18:34, 6 April 2010 diff hist +304 N C++ Library: FASTQ Change Log Created page with '=libfqf Change Log = This page tracks the updates/enhancements that have been updated in the git repository. It is primarily used to track the user interface changes, so users c…'
- 18:31, 6 April 2010 diff hist +52 C++ Class: FastQFile
- 18:12, 6 April 2010 diff hist -10,036 LibStatGen: FASTQ
- 18:12, 6 April 2010 diff hist +28 LibStatGen: general →Classes in the FastQFile Library
- 18:11, 6 April 2010 diff hist +10,283 C++ Class: FastQFile
- 17:40, 6 April 2010 diff hist +950 N C++ Class: FastQFile Created page with '== Reading/Validating FastQ Files In Your Program == The '''FastQFile''' class allows a user to easily read/validate a fastq file. === Class Methods === {| style="margin: 1em 1…'
- 17:34, 6 April 2010 diff hist +141 LibStatGen: FASTQ
- 17:33, 6 April 2010 diff hist +404 LibStatGen: FASTQ
- 17:32, 6 April 2010 diff hist +749 N LibStatGen: general Created page with '= libcsg = This library contains utility classes that are useful for many of the other developed software programs/libraries. See C++ Library: libcsg Change Log for a list o…'
- 17:20, 6 April 2010 diff hist +33 N FastQFile moved FastQFile to C++ Library: libfqf current
- 17:20, 6 April 2010 diff hist 0 m LibStatGen: FASTQ moved FastQFile to C++ Library: libfqf
- 17:20, 6 April 2010 diff hist +3 LibStatGen: BAM
- 17:19, 6 April 2010 diff hist +33 N C++ Library: bam moved C++ Library: bam to C++ Library: libbam current
- 17:19, 6 April 2010 diff hist 0 m LibStatGen: BAM moved C++ Library: bam to C++ Library: libbam
- 17:10, 6 April 2010 diff hist +847 BamUtil
- 17:09, 6 April 2010 diff hist -584 LibStatGen: BAM
- 17:02, 6 April 2010 diff hist +5 LibStatGen: BAM
- 16:56, 6 April 2010 diff hist +391 LibStatGen: BAM
- 16:42, 6 April 2010 diff hist +30 N BamFile moved BamFile to C++ Library: bam current
- 16:42, 6 April 2010 diff hist 0 m LibStatGen: BAM moved BamFile to C++ Library: bam
- 16:41, 6 April 2010 diff hist +60 C++ Class: SamFileHeader
- 16:41, 6 April 2010 diff hist +528 C++ Class: SamRecord
- 16:23, 6 April 2010 diff hist +53 C++ Class: SamFile
- 16:20, 6 April 2010 diff hist -1,444 C++ Class: SamFile
- 13:43, 6 April 2010 diff hist +606 BamUtil
- 11:58, 6 April 2010 diff hist +111 BamUtil
- 11:57, 6 April 2010 diff hist +661 BamUtil
- 11:50, 6 April 2010 diff hist +425 N BamUtil Created page with '= bam Executable = The bam executable has the following functions. * Read and Validate a SAM/BAM file * Read a SAM/BAM fi…'
- 11:27, 6 April 2010 diff hist +687 C++ Class: SamFile →Class Methods
- 11:13, 6 April 2010 diff hist +495 C++ Class: SamRecord
- 11:10, 6 April 2010 diff hist +9,448 N C++ Class: SamRecord Created page with '== Setting fields in a SAM/BAM Record == The '''SamRecord''' class contains accessors to set the fields of a SAM/BAM record. They are used for creating a record that is not read…'
- 11:10, 6 April 2010 diff hist -9,183 LibStatGen: BAM
- 11:06, 6 April 2010 diff hist +2,135 N C++ Class: SamFileHeader Created page with '== SamFileHeader == This class allows a user to get/set the fields in a SAM/BAM Header. === Setting fields in the Header === The '''SamFileHeader''' class contains accessors to …'
- 11:03, 6 April 2010 diff hist -1,282 LibStatGen: BAM
- 10:56, 6 April 2010 diff hist +573 C++ Class: SamFile
- 10:48, 6 April 2010 diff hist +470 C++ Class: SamFile
- 10:41, 6 April 2010 diff hist +726 C++ Class: SamFile →Usage Example
- 10:09, 6 April 2010 diff hist -2 C++ Class: SamFile →Usage Example
- 10:05, 6 April 2010 diff hist -7,903 LibStatGen: BAM →Reading/Writing SAM/BAM Files In Your Program
- 10:04, 6 April 2010 diff hist +130 C++ Class: SamFile
- 10:00, 6 April 2010 diff hist +34 C++ Class: SamFile
- 09:56, 6 April 2010 diff hist +34 LibStatGen: BAM
- 09:49, 6 April 2010 diff hist +17 LibStatGen: BAM →Usage Example
- 09:46, 6 April 2010 diff hist -4 C++ Library: general Change Log
- 09:46, 6 April 2010 diff hist -36 C++ Library: general Change Log
- 09:46, 6 April 2010 diff hist +7 C++ Library: general Change Log →4/5/2010
- 09:45, 6 April 2010 diff hist +715 N C++ Library: general Change Log Created page with '= C++ Library: libcsg Change Log = == Enhancements/Updates/Fixes == === 4/5/2010 === * Modified '''IFILE''' class methods ''ifread''' & '''readFromFile''' to return an '''int''…'
- 15:39, 2 April 2010 diff hist 0 LibStatGen: BAM →SAM/BAM File
- 15:38, 2 April 2010 diff hist -11 LibStatGen: FASTQ
- 15:37, 2 April 2010 diff hist +325 LibStatGen: FASTQ
- 15:34, 2 April 2010 diff hist +363 FastQValidator
- 09:33, 31 March 2010 diff hist -4 LibStatGen: BAM →SAM/BAM File
- 09:18, 31 March 2010 diff hist -12 C++ Class: SamFile
- 16:26, 29 March 2010 diff hist +962 LibStatGen: BAM
- 08:37, 26 March 2010 diff hist +470 LibStatGen: BAM
- 16:29, 25 March 2010 diff hist +86 LibStatGen: BAM
- 16:19, 25 March 2010 diff hist +31 LibStatGen: BAM
- 15:09, 25 March 2010 diff hist +364 LibStatGen: BAM
- 14:29, 25 March 2010 diff hist +41 FastQValidator
- 14:24, 25 March 2010 diff hist -2 FastQValidator →Status
- 14:23, 25 March 2010 diff hist +126 FastQValidator
- 10:58, 25 March 2010 diff hist +92 FastQValidator
- 10:56, 25 March 2010 diff hist +350 FastQValidator
- 10:54, 25 March 2010 diff hist +513 LibStatGen: FASTQ
- 09:12, 25 March 2010 diff hist +61 Main Page
- 16:46, 24 March 2010 diff hist +48 LibStatGen: BAM
- 16:41, 24 March 2010 diff hist +4,673 LibStatGen: BAM
- 13:09, 23 March 2010 diff hist -1 LibStatGen: BAM →Reading/Writing SAM/BAM Files In Your Program
- 13:09, 23 March 2010 diff hist +969 LibStatGen: BAM
- 14:47, 22 March 2010 diff hist +2 SAM Validation Criteria →BamFile Class
- 14:47, 22 March 2010 diff hist +34 SAM Validation Criteria
- 14:44, 22 March 2010 diff hist +37 N BamFile/SAM Validation Criteria moved BamFile/SAM Validation Criteria to SAM Validation Criteria over redirect current
- 14:44, 22 March 2010 diff hist 0 m SAM Validation Criteria moved BamFile/SAM Validation Criteria to SAM Validation Criteria over redirect
- 14:42, 22 March 2010 diff hist 0 m SAM Validation Criteria moved SAM Validation Criteria to BamFile/SAM Validation Criteria
- 11:23, 19 March 2010 diff hist +160 LibStatGen: BAM
- 18:22, 18 March 2010 diff hist +530 SAM Validation Criteria
- 12:01, 18 March 2010 diff hist +75 SAM Validation Criteria
- 09:47, 18 March 2010 diff hist +9 LibStatGen: BAM
- 09:47, 18 March 2010 diff hist +293 LibStatGen: BAM →Setting fields in a SAM/BAM Header
- 14:52, 17 March 2010 diff hist +1,965 SAM Validation Criteria →SAM Alignment Validation
- 14:44, 17 March 2010 diff hist +1,638 SAM Validation Criteria
- 14:38, 17 March 2010 diff hist +52 SAM Validation Criteria
- 14:30, 17 March 2010 diff hist +2,441 N SAM Validation Criteria Created page with '=== SAM Header Validation Rules === TODO === SAM Alignment Validation === {| class="wikitable" style="width:100%" border="1" |+ style="font-size:150%"|'''SAM Alignment Record'''…'
- 14:29, 17 March 2010 diff hist +73 LibStatGen: BAM
- 11:43, 17 March 2010 diff hist +3 LibStatGen: BAM →Read & Write BAM/SAM Executable
- 11:42, 17 March 2010 diff hist +404 LibStatGen: BAM
- 11:38, 17 March 2010 diff hist +426 LibStatGen: BAM
- 17:08, 16 March 2010 diff hist +1,656 LibStatGen: BAM →Retrieving fields from a SAM/BAM Record
- 15:53, 16 March 2010 diff hist +1,708 LibStatGen: BAM
- 15:28, 16 March 2010 diff hist -3 LibStatGen: BAM
- 14:58, 16 March 2010 diff hist +1,092 LibStatGen: BAM
- 14:51, 16 March 2010 diff hist +4,054 LibStatGen: BAM
- 13:46, 16 March 2010 diff hist +1,121 LibStatGen: BAM
- 13:42, 16 March 2010 diff hist +1,464 N LibStatGen: BAM Created page with '= SAM/BAM File= == Reading/Writing SAM/BAM Files == The SamFile class allows a user to easily read/write a SAM/BAM file. This methods found in this class are: {| class="wikitabl…'
- 13:26, 16 March 2010 diff hist +174 LibStatGen: FASTQ
- 22:25, 15 March 2010 diff hist +140 LibStatGen: FASTQ
- 15:23, 15 March 2010 diff hist +780 LibStatGen: FASTQ
- 17:19, 12 March 2010 diff hist +31 LibStatGen: FASTQ
- 17:18, 12 March 2010 diff hist +1,576 LibStatGen: FASTQ
- 13:44, 1 March 2010 diff hist +66 FastQValidator
- 15:58, 22 February 2010 diff hist +88 FastQValidator
- 15:02, 22 February 2010 diff hist +187 FastQValidator
- 15:01, 22 February 2010 diff hist +666 LibStatGen: FASTQ
- 14:47, 22 February 2010 diff hist +46 LibStatGen: FASTQ
- 14:46, 22 February 2010 diff hist -40 LibStatGen: FASTQ →How to Use the fastQFile Library
- 14:17, 22 February 2010 diff hist +43 FastQValidator
- 14:16, 22 February 2010 diff hist +407 LibStatGen: FASTQ
- 14:16, 22 February 2010 diff hist -60 FastQValidator
- 14:01, 22 February 2010 diff hist +6 LibStatGen: FASTQ
- 13:58, 22 February 2010 diff hist +68 LibStatGen: FASTQ
- 13:56, 22 February 2010 diff hist 0 LibStatGen: FASTQ →Validation Criteria Used FOr Reading a Sequence
- 13:56, 22 February 2010 diff hist +69 FastQValidator →Valid FastQ File Requirements
- 13:56, 22 February 2010 diff hist -21 LibStatGen: FASTQ →Validation Criteria Used for Reporting Errors as a Sequence is Read
- 13:52, 22 February 2010 diff hist +1,886 FastQValidator
- 13:52, 22 February 2010 diff hist -3,533 LibStatGen: FASTQ
- 13:25, 22 February 2010 diff hist +2 Main Page →Quality Control Utilities
- 13:25, 22 February 2010 diff hist +96 Main Page →Quality Control Utilities
- 12:43, 19 February 2010 diff hist +34 FastQValidator →Status
- 12:43, 19 February 2010 diff hist -6 FastQValidator →Status
- 12:43, 19 February 2010 diff hist 0 m LibStatGen: FASTQ moved FastQValidator to FastQFile: Updated the class for more functionality
- 12:41, 19 February 2010 diff hist +1 LibStatGen: FASTQ
- 12:41, 19 February 2010 diff hist +370 LibStatGen: FASTQ
- 12:37, 19 February 2010 diff hist +1,622 LibStatGen: FASTQ
- 15:28, 5 February 2010 diff hist +1,167 LibStatGen: FASTQ
- 14:25, 5 February 2010 diff hist +674 LibStatGen: FASTQ
- 12:55, 5 February 2010 diff hist +88 LibStatGen: FASTQ
- 15:19, 4 February 2010 diff hist +1 LibStatGen: FASTQ
- 15:19, 4 February 2010 diff hist +86 LibStatGen: FASTQ →Validation Criteria
- 14:59, 4 February 2010 diff hist +984 LibStatGen: FASTQ
- 14:54, 4 February 2010 diff hist +171 LibStatGen: FASTQ
- 14:42, 4 February 2010 diff hist +847 LibStatGen: FASTQ
- 14:34, 4 February 2010 diff hist +1,581 LibStatGen: FASTQ
- 14:18, 4 February 2010 diff hist +440 LibStatGen: FASTQ
- 12:44, 4 February 2010 diff hist +205 LibStatGen: FASTQ →Sequence Identifier Line
- 17:44, 3 February 2010 diff hist +1,227 LibStatGen: FASTQ
- 11:48, 3 February 2010 diff hist +50 LibStatGen: FASTQ
- 11:37, 3 February 2010 diff hist +993 N LibStatGen: FASTQ Created page with '== How to Use the fastQValidator Executable == '''Required Parameters:''' -f : FastQ filename with path to be prorcessed. '''Optional Parameters:''' -l : Min…'
- 10:58, 3 February 2010 diff hist +67 FastQValidator