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annotate test-data/fastqc_contaminants.txt @ 24:2c64fded1286 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastqc commit cd51396b097cf63734578cdac8fc6c64500c8b4b
author iuc
date Tue, 06 Aug 2024 06:12:08 +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
parents: 0
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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
iuc
parents: 0
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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
parents: 0
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5 #
a00a6402d09a planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastqc commit 2bfbb5ae6b801e43355fdc3f964a5111fe3fe3a1
iuc
parents: 0
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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
iuc
parents: 0
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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
iuc
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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
parents: 0
diff changeset
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
iuc
parents: 0
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10 #
a00a6402d09a planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastqc commit 2bfbb5ae6b801e43355fdc3f964a5111fe3fe3a1
iuc
parents: 0
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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
iuc
parents: 0
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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
parents: 0
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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
iuc
parents: 0
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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
iuc
parents: 0
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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
iuc
parents: 0
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16 # the program can benefit.
20
ddf5c37952ac planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/fastqc commit 89976e27bd11f1da3c95a5df6b67297496a8a89b
iuc
parents: 19
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17 TestContaminant ATGCATGCATGCATGCATGCATGC