frozenleaves/biopython
1
0
Fork 0
mirror of https://github.com/biopython/biopython.git synced 2025-10-20 21:53:47 +08:00
Code Issues Packages Projects Releases Wiki Activity
Files
master
biopython/Tests/Quality
History
peterjc e808d99b81 Testing indexing FASTQ file with zero length record (issue #269) 
Example file from Sam Hunter, included in his bug report.
2013-12-12 16:42:55 +00:00
..
error_diff_ids.fastq
Adding the new FASTQ error examples explicitly (as doing it earlier with wildcards didn't seem to work)
2009-08-08 12:30:51 +00:00
error_double_qual.fastq
Two more mangled FASTQ files for the parser to reject
2009-08-27 15:34:34 +00:00
error_double_seq.fastq
Two more mangled FASTQ files for the parser to reject
2009-08-27 15:34:34 +00:00
error_long_qual.fastq
Adding the new FASTQ error examples explicitly (as doing it earlier with wildcards didn't seem to work)
2009-08-08 12:30:51 +00:00
error_no_qual.fastq
Adding the new FASTQ error examples explicitly (as doing it earlier with wildcards didn't seem to work)
2009-08-08 12:30:51 +00:00
error_qual_del.fastq
Adding the new FASTQ error examples explicitly (as doing it earlier with wildcards didn't seem to work)
2009-08-08 12:30:51 +00:00
error_qual_escape.fastq
Adding the new FASTQ error examples explicitly (as doing it earlier with wildcards didn't seem to work)
2009-08-08 12:30:51 +00:00
error_qual_null.fastq
My FASTQ file with a null got mangled. Flagged it as a binary file in CVS
2009-08-08 13:44:08 +00:00
error_qual_space.fastq
Fixed FASTQ space example so length matches sequence. FASTQ mapping tests.
2009-08-09 19:38:51 +00:00
error_qual_tab.fastq
Adding the new FASTQ error examples explicitly (as doing it earlier with wildcards didn't seem to work)
2009-08-08 12:30:51 +00:00
error_qual_unit_sep.fastq
Adding the new FASTQ error examples explicitly (as doing it earlier with wildcards didn't seem to work)
2009-08-08 12:30:51 +00:00
error_qual_vtab.fastq
Adding the new FASTQ error examples explicitly (as doing it earlier with wildcards didn't seem to work)
2009-08-08 12:30:51 +00:00
error_short_qual.fastq
Fix from Peter Rice (EMBOSS), this had a short sequence not a sort quality
2009-08-27 14:45:27 +00:00
error_spaces.fastq
Adding the new FASTQ error examples explicitly (as doing it earlier with wildcards didn't seem to work)
2009-08-08 12:30:51 +00:00
error_tabs.fastq
Adding the new FASTQ error examples explicitly (as doing it earlier with wildcards didn't seem to work)
2009-08-08 12:30:51 +00:00
error_trunc_at_plus.fastq
Adding the new FASTQ error examples explicitly (as doing it earlier with wildcards didn't seem to work)
2009-08-08 12:30:51 +00:00
error_trunc_at_qual.fastq
Adding the new FASTQ error examples explicitly (as doing it earlier with wildcards didn't seem to work)
2009-08-08 12:30:51 +00:00
error_trunc_at_seq.fastq
Adding the new FASTQ error examples explicitly (as doing it earlier with wildcards didn't seem to work)
2009-08-08 12:30:51 +00:00
error_trunc_in_plus.fastq
Redoing a missing commit for FASTQ examples
2009-08-28 16:43:45 +00:00
error_trunc_in_qual.fastq
Including a FASTQ example truncated mid quality (from Peter Rice, EMBOSS)
2009-08-27 14:49:53 +00:00
error_trunc_in_seq.fastq
Redoing a missing commit for FASTQ examples
2009-08-28 16:43:45 +00:00
error_trunc_in_title.fastq
Redoing a missing commit for FASTQ examples
2009-08-28 16:43:45 +00:00
example_dos.fastq
Explicitly tests parsing & indexing FASTQ with DOS/Windows newlines
2013-11-04 10:58:10 +00:00
example_dos.fastq.bgz
Test BGZF compressed FASTQ file with DOS/Windows line endings
2013-11-04 11:16:14 +00:00
example.fasta
Sample FASTQ and QUAL files for Bio.SeqIO testing (see Bug 2767)
2009-03-17 20:52:08 +00:00
example.fastq
Sample FASTQ and QUAL files for Bio.SeqIO testing (see Bug 2767)
2009-03-17 20:52:08 +00:00
example.fastq.bgz
Include GZIP and BGZF compressed versions of example.fastq
2012-06-21 16:48:31 +01:00
example.fastq.gz
Include GZIP and BGZF compressed versions of example.fastq
2012-06-21 16:48:31 +01:00
example.qual
Sample FASTQ and QUAL files for Bio.SeqIO testing (see Bug 2767)
2009-03-17 20:52:08 +00:00
illumina_faked.fastq
More simple FASTQ examples for unit tests
2009-07-22 11:11:30 +00:00
illumina_full_range_as_illumina.fastq
Correction to FASTQ Illumina 1.3+ example captions, reported by Naohisa Goto from BioRuby
2009-10-08 10:18:19 +01:00
illumina_full_range_as_sanger.fastq
Correction to FASTQ Illumina 1.3+ example captions, reported by Naohisa Goto from BioRuby
2009-10-08 10:18:19 +01:00
illumina_full_range_as_solexa.fastq
Correction to FASTQ Illumina 1.3+ example captions, reported by Naohisa Goto from BioRuby
2009-10-08 10:18:19 +01:00
illumina_full_range_original_illumina.fastq
Correction to FASTQ Illumina 1.3+ example captions, reported by Naohisa Goto from BioRuby
2009-10-08 10:18:19 +01:00
longreads_as_illumina.fastq
Adding test FASTQ files with reference conversions (from the test cases we will be sharing with the other OBF projects)
2009-09-01 10:42:58 +00:00
longreads_as_sanger.fastq
Adding test FASTQ files with reference conversions (from the test cases we will be sharing with the other OBF projects)
2009-09-01 10:42:58 +00:00
longreads_as_solexa.fastq
Adding test FASTQ files with reference conversions (from the test cases we will be sharing with the other OBF projects)
2009-09-01 10:42:58 +00:00
longreads_original_sanger.fastq
Adding test FASTQ files with reference conversions (from the test cases we will be sharing with the other OBF projects)
2009-09-01 10:42:58 +00:00
misc_dna_as_illumina.fastq
Adding test FASTQ files with reference conversions (from the test cases we will be sharing with the other OBF projects)
2009-09-01 10:42:58 +00:00
misc_dna_as_sanger.fastq
Adding test FASTQ files with reference conversions (from the test cases we will be sharing with the other OBF projects)
2009-09-01 10:42:58 +00:00
misc_dna_as_solexa.fastq
Adding test FASTQ files with reference conversions (from the test cases we will be sharing with the other OBF projects)
2009-09-01 10:42:58 +00:00
misc_dna_original_sanger.fastq
Adding test FASTQ files with reference conversions (from the test cases we will be sharing with the other OBF projects)
2009-09-01 10:42:58 +00:00
misc_rna_as_illumina.fastq
Adding test FASTQ files with reference conversions (from the test cases we will be sharing with the other OBF projects)
2009-09-01 10:42:58 +00:00
misc_rna_as_sanger.fastq
Adding test FASTQ files with reference conversions (from the test cases we will be sharing with the other OBF projects)
2009-09-01 10:42:58 +00:00
misc_rna_as_solexa.fastq
Adding test FASTQ files with reference conversions (from the test cases we will be sharing with the other OBF projects)
2009-09-01 10:42:58 +00:00
misc_rna_original_sanger.fastq
Adding test FASTQ files with reference conversions (from the test cases we will be sharing with the other OBF projects)
2009-09-01 10:42:58 +00:00
sanger_93.fastq
More simple FASTQ examples for unit tests
2009-07-22 11:11:30 +00:00
sanger_faked.fastq
More simple FASTQ examples for unit tests
2009-07-22 11:11:30 +00:00
sanger_full_range_as_illumina.fastq
Correction to Sanger FASTQ example captions, reported by Naohisa Goto from BioRuby
2009-10-08 10:21:18 +01:00
sanger_full_range_as_sanger.fastq
Correction to Sanger FASTQ example captions, reported by Naohisa Goto from BioRuby
2009-10-08 10:21:18 +01:00
sanger_full_range_as_solexa.fastq
Correction to Sanger FASTQ example captions, reported by Naohisa Goto from BioRuby
2009-10-08 10:21:18 +01:00
sanger_full_range_original_sanger.fastq
Correction to Sanger FASTQ example captions, reported by Naohisa Goto from BioRuby
2009-10-08 10:21:18 +01:00
solexa_example.fastq
Adding a short Solexa FASTQ file (used in the MAQ documentation), and expanding the docstring/doctest to use this and disucss the conversion to PHRED scores.
2009-03-18 10:59:22 +00:00
solexa_faked.fastq
Noticed solexa.fastq is actually a Solexa read held in the Sanger standard FASTQ format. Updating doc tests with a replacement (faked) Solexa style file.
2009-07-21 16:46:03 +00:00
solexa_full_range_as_illumina.fastq
Correction to Solexa FASTQ example captions, reported by Naohisa Goto from BioRuby
2009-10-08 10:24:08 +01:00
solexa_full_range_as_sanger.fastq
Correction to Solexa FASTQ example captions, reported by Naohisa Goto from BioRuby
2009-10-08 10:24:08 +01:00
solexa_full_range_as_solexa.fastq
Correction to Solexa FASTQ example captions, reported by Naohisa Goto from BioRuby
2009-10-08 10:24:08 +01:00
solexa_full_range_original_solexa.fastq
Correction to Solexa FASTQ example captions, reported by Naohisa Goto from BioRuby
2009-10-08 10:24:08 +01:00
tricky.fastq
Sample FASTQ and QUAL files for Bio.SeqIO testing (see Bug 2767)
2009-03-17 20:52:08 +00:00
wrapping_as_illumina.fastq
Adding test FASTQ files with reference conversions (from the test cases we will be sharing with the other OBF projects)
2009-09-01 10:42:58 +00:00
wrapping_as_sanger.fastq
Adding test FASTQ files with reference conversions (from the test cases we will be sharing with the other OBF projects)
2009-09-01 10:42:58 +00:00
wrapping_as_solexa.fastq
Adding test FASTQ files with reference conversions (from the test cases we will be sharing with the other OBF projects)
2009-09-01 10:42:58 +00:00
wrapping_original_sanger.fastq
Adding test FASTQ files with reference conversions (from the test cases we will be sharing with the other OBF projects)
2009-09-01 10:42:58 +00:00
zero_length.fastq
Testing indexing FASTQ file with zero length record (issue #269)
2013-12-12 16:42:55 +00:00