Mercurial > repos > devteam > picard
view test-data/picard_CollectInsertSizeMetrics_test1.tab @ 19:5053a18d9bc8 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/picard commit 7036343b9ac0a0ffc2ce4f6db465b9298ef05e73
author | iuc |
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date | Mon, 16 Apr 2018 21:27:29 -0400 |
parents | 3d4f1fa26f0e |
children | 3f254c5ced1d |
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## htsjdk.samtools.metrics.StringHeader # CollectInsertSizeMetrics HISTOGRAM_FILE=/tmp/tmpYRm8q4/files/000/dataset_25.dat DEVIATIONS=10.0 HISTOGRAM_WIDTH=500 MINIMUM_PCT=0.05 METRIC_ACCUMULATION_LEVEL=[ALL_READS] INPUT=picard_CollectInsertSizeMetrics_bam OUTPUT=/tmp/tmpYRm8q4/files/000/dataset_24.dat ASSUME_SORTED=true VERBOSITY=ERROR QUIET=true VALIDATION_STRINGENCY=LENIENT REFERENCE_SEQUENCE=localref.fa INCLUDE_DUPLICATES=false STOP_AFTER=0 COMPRESSION_LEVEL=5 MAX_RECORDS_IN_RAM=500000 CREATE_INDEX=false CREATE_MD5_FILE=false GA4GH_CLIENT_SECRETS=client_secrets.json USE_JDK_DEFLATER=false USE_JDK_INFLATER=false ## htsjdk.samtools.metrics.StringHeader # Started on: Sat Apr 14 09:28:38 CEST 2018 ## METRICS CLASS picard.analysis.InsertSizeMetrics MEDIAN_INSERT_SIZE MODE_INSERT_SIZE MEDIAN_ABSOLUTE_DEVIATION MIN_INSERT_SIZE MAX_INSERT_SIZE MEAN_INSERT_SIZE STANDARD_DEVIATION READ_PAIRS PAIR_ORIENTATION WIDTH_OF_10_PERCENT WIDTH_OF_20_PERCENT WIDTH_OF_30_PERCENT WIDTH_OF_40_PERCENT WIDTH_OF_50_PERCENT WIDTH_OF_60_PERCENT WIDTH_OF_70_PERCENT WIDTH_OF_80_PERCENT WIDTH_OF_90_PERCENT WIDTH_OF_95_PERCENT WIDTH_OF_99_PERCENT SAMPLE LIBRARY READ_GROUP 200 203 28 112 251 193.969697 36.171207 99 FR 7 15 33 43 57 73 83 99 125 133 177 ## HISTOGRAM java.lang.Integer insert_size All_Reads.fr_count 112 1 120 1 132 2 134 2 138 5 139 1 140 1 141 1 151 2 156 4 157 1 159 1 161 2 169 1 172 1 173 1 177 3 179 3 182 3 184 4 185 2 187 1 192 1 193 1 194 3 200 2 201 5 203 8 205 1 208 1 213 4 216 1 222 1 228 5 229 2 230 1 231 3 233 1 236 2 238 2 241 4 242 3 250 2 251 3