annotate test-data/fastqc_contaminants.txt @ 23:5ec9f6bceaee draft default tip

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastqc commit 9aa395df821f0d3607867c83536ac97f9ffe8b29
author iuc
date Thu, 08 Jun 2023 20:02:11 +0000
parents ddf5c37952ac
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a00a6402d09a planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastqc commit 2bfbb5ae6b801e43355fdc3f964a5111fe3fe3a1
iuc
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1 # This file contains a list of potential contaminants which are
a00a6402d09a planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastqc commit 2bfbb5ae6b801e43355fdc3f964a5111fe3fe3a1
iuc
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2 # frequently found in high throughput sequencing reactions. These
a00a6402d09a planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastqc commit 2bfbb5ae6b801e43355fdc3f964a5111fe3fe3a1
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3 # are mostly sequences of adapters / primers used in the various
a00a6402d09a planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastqc commit 2bfbb5ae6b801e43355fdc3f964a5111fe3fe3a1
iuc
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4 # sequencing chemistries.
a00a6402d09a planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastqc commit 2bfbb5ae6b801e43355fdc3f964a5111fe3fe3a1
iuc
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5 #
a00a6402d09a planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastqc commit 2bfbb5ae6b801e43355fdc3f964a5111fe3fe3a1
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6 # Please DO NOT rely on these sequences to design your own oligos, some
a00a6402d09a planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastqc commit 2bfbb5ae6b801e43355fdc3f964a5111fe3fe3a1
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7 # of them are truncated at ambiguous positions, and none of them are
a00a6402d09a planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastqc commit 2bfbb5ae6b801e43355fdc3f964a5111fe3fe3a1
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8 # definitive sequences from the manufacturers so don't blame us if you
a00a6402d09a planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastqc commit 2bfbb5ae6b801e43355fdc3f964a5111fe3fe3a1
iuc
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9 # try to use them and they don't work.
a00a6402d09a planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastqc commit 2bfbb5ae6b801e43355fdc3f964a5111fe3fe3a1
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10 #
a00a6402d09a planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastqc commit 2bfbb5ae6b801e43355fdc3f964a5111fe3fe3a1
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11 # You can add more sequences to the file by putting one line per entry
a00a6402d09a planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastqc commit 2bfbb5ae6b801e43355fdc3f964a5111fe3fe3a1
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12 # and specifying a name[tab]sequence. If the contaminant you add is
a00a6402d09a planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastqc commit 2bfbb5ae6b801e43355fdc3f964a5111fe3fe3a1
iuc
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13 # likely to be of use to others please consider sending it to the FastQ
a00a6402d09a planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastqc commit 2bfbb5ae6b801e43355fdc3f964a5111fe3fe3a1
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14 # authors, either via a bug report at www.bioinformatics.bbsrc.ac.uk/bugzilla/
a00a6402d09a planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastqc commit 2bfbb5ae6b801e43355fdc3f964a5111fe3fe3a1
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15 # or by directly emailing simon.andrews@bbsrc.ac.uk so other users of
a00a6402d09a planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastqc commit 2bfbb5ae6b801e43355fdc3f964a5111fe3fe3a1
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16 # the program can benefit.
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ddf5c37952ac planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastqc commit 89976e27bd11f1da3c95a5df6b67297496a8a89b
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17 TestContaminant ATGCATGCATGCATGCATGCATGC