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Documents

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README.md ................................ source -- igv
/docs
AWS.md ................................... source -- Amazon Web Services support for IGV desktop
/docs/RelNotes
v2.4.x.md ................................ source -- IGV 2.4.x
/genomes/db/1kg_ref
1kg_ref_dataServerRegistry.txt ........... source
/genomes/db/1kg_v37
1kg_v37_dataServerRegistry.txt ........... source
/genomes/db/AGPv3.31
AGPv3.31_dataServerRegistry.txt .......... source
/genomes/db/D.discoideum
D.discoideum_dataServerRegistry.txt ...... source
/genomes/db/GCF_000233375.1
GCF_000233375.1_dataServerRegistry.txt ... source
/genomes/db/GSM552910
GSM552910_dataServerRegistry.txt ......... source
/genomes/db/S_pombe_709
S_pombe_709_dataServerRegistry.txt ....... source
/genomes/db/WS241
ws241_dataServerRegistry.txt ............. source
/genomes/db/b37
b37_dataServerRegistry.txt ............... source
/genomes/db/canFam2
canFam2_dataServerRegistry.txt ........... source
/genomes/db/ce4
ce4_dataServerRegistry.txt ............... source
/genomes/db/ce6
ce6_dataServerRegistry.txt ............... source
/genomes/db/danRer11
danRer11_dataServerRegistry.txt .......... source
/genomes/db/dm2
dm2_dataServerRegistry.txt ............... source
/genomes/db/dm3
dm3_dataServerRegistry.txt ............... source
/genomes/db/dmel_r5.33
dmel_r5.33_dataServerRegistry.txt ........ source
/genomes/db/galGal5
galGal5_dataServerRegistry.txt ........... source
/genomes/db/hg18
hg18_dataServerRegistry.txt .............. source
/genomes/db/hg19
hg19_dataServerRegistry.txt .............. source
/genomes/db/hg38
hg38_dataServerRegistry.txt .............. source
/genomes/db/mm10
mm10_dataServerRegistry.txt .............. source
/genomes/db/mm8
mm8_dataServerRegistry.txt ............... source
/genomes/db/mm9
mm9_dataServerRegistry.txt ............... source
/genomes/db/rn4
rn4_dataServerRegistry.txt ............... source
/genomes/db/sacCer3
sacCer3_dataServerRegistry.txt ........... source
/genomes/db/tair9
tair9_dataServerRegistry.txt ............. source
/genomes/db/ws220
WS220_dataServerRegistry.txt ............. source
/genomes/db/ws235
ws235_dataServerRegistry.txt ............. source
/genomes/db/xenTro2
xenTro2_dataServerRegistry.txt ........... source
/genomes
genomes.txt .............................. source
/lib
apache_license.txt ....................... source
license.txt .............................. source
/resources
ucscEncodeDirectories.hg18.txt ........... source
/scripts
igvtools_readme.txt ...................... source
/scripts/nsis
license_win.txt .......................... source
/scripts
readme.txt ............................... source
/src/main/java/org/broad/igv/sam
notes.txt ................................ source
/src/main/java/org/broad/igv/tdf
notes.txt ................................ source
/src/main/resources
copyright.txt ............................ source
/src/main/resources/org/broad/igv/cli_plugin/resources
builtin_plugins.txt ...................... source
/src/main/resources/org/broad/igv/feature/genome
speciesMapping.txt ....................... source
/src/main/resources/org/broad/igv/feature/resources
AANamesTable.txt ......................... source
/src/main/resources/org/broad/igv/ui/color/resources
colorPalettes.txt ........................ source
/src/main/resources/org/broad/igv/ui/resources
builtin_plugin_list.txt .................. source
/src/main/resources/org/broad/igv/util/encode
encode.hg18.txt .......................... source
encode.hg19.txt .......................... source
encode.mm9.txt ........................... source
/src/main/resources/org/broad/igv/util/resources
iupac_regex_table.txt .................... source
/src/main/resources/resources
bedtools_help.txt ........................ source
codonTable.txt ........................... source
/src/main/resources/slider
LICENSE.txt .............................. source
/src/test
README.txt ............................... source
/test/data/batch
batch_fasta.txt .......................... source
batch_test1.txt .......................... source
group_alignments.txt ..................... source
squish_specific_track.txt ................ source
testSnapshots.txt ........................ source
test_splitscreen.txt ..................... source
/test/data/bed
intervalTest.bed.txt ..................... source
/test/data/fasta
ecoli_out.padded.fasta.txt ............... source
/test/data/ga4gh
reads.ga4gh.txt .......................... source
/test/data/gc
chr1.txt ................................. source
chr2.txt ................................. source
/test/data/gct
GBM.methylation__sampled.data.txt ........ source
OV.transcriptome__agilentg4502.data.txt .. source
/test/data/genomes/genome_raw_files/hg18.unittest
hg18_cytoBand.txt ........................ source
hg18_refGene_head1k.txt .................. source
/test/data/gerald
chr10_s_1_sorted.txt ..................... source
/test/data/goby
README.txt ............................... source
/test/data/goby/spliced
README.txt ............................... source
/test/data/goby/tricky
details_on_read_issue.txt ................ source
/test/data/igv
recombRate.ens.igv.txt ................... source
recombRate.igv.txt ....................... source
/test/data/sample
BRCA_sif.txt ............................. source