Supplemental_Scripts.zip
GenomeTools2020-master
.DS_Store
12.3 kB
.gitattributes
66 Bytes
DEPENDENCIES
.DS_Store
14.3 kB
H1_BEDs
.DS_Store
6.1 kB
ATF3.bed
351.2 kB
BACH1.bed
780.4 kB
BRCA1.bed
118.3 kB
Bed_List.txt
459 Bytes
CBX5.bed
20.4 kB
CBX8.bed
172.5 kB
CHD1.bed
125.1 kB
CHD2.bed
561.6 kB
CHD7.bed
444.8 kB
CTBP2.bed
537.2 kB
CTCF.bed
3.6 MB
EGR1.bed
726.4 kB
EP300.bed
838.3 kB
FOSL1.bed
78.9 kB
GABPA.bed
585.5 kB
GTF2F1.bed
246.2 kB
HDAC2.bed
614.9 kB
JUN.bed
160.5 kB
JUND.bed
877.4 kB
KDM1A.bed
1.3 MB
KDM5A.bed
251.3 kB
MAFK.bed
827.7 kB
MAX.bed
358.2 kB
MYC.bed
389.9 kB
Manifest.txt
54.2 kB
NANOG.bed
517.7 kB
NRF1.bed
302.8 kB
PHF8.bed
1.4 MB
POLR2A.bed
2.4 MB
RAD21.bed
3.8 MB
RBBP5.bed
1.4 MB
REST.bed
1.0 MB
RFX5.bed
135.9 kB
RNF2.bed
688.6 kB
RXRA.bed
130.2 kB
SAP30.bed
602.8 kB
SIN3A.bed
878.5 kB
SIX5.bed
211.1 kB
SP1.bed
1.2 MB
SRF.bed
359.5 kB
SUZ12.bed
255.4 kB
TAF1.bed
1.8 MB
TAF7.bed
888.3 kB
TBP.bed
1.4 MB
TCF12.bed
747.8 kB
TEAD4.bed
1.4 MB
USF1.bed
1.9 MB
USF2.bed
520.6 kB
YY1.bed
1.6 MB
ZNF143.bed
2.2 MB
ZNF274.bed
88.0 kB
STARR_Seq_FASTQs
.DS_Store
6.1 kB
HOT_STARR_FASTA_Reference.fa
12.5 MB
SL_List.txt
19 Bytes
forward_sub_SL315834.fastq
359.5 kB
forward_sub_SL315835.fastq
359.5 kB
reverse_sub_SL315834.fastq
359.5 kB
reverse_sub_SL315835.fastq
359.5 kB
SplitProblemPeaks.R
2.2 kB
bowtie2-2.3.5.1-macos-x86_64
AUTHORS
1.5 kB
Dockerfile-aarch64
388 Bytes
LICENSE
35.1 kB
MANUAL
88.9 kB
MANUAL.markdown
117.5 kB
NEWS
27.6 kB
README.md
6.0 kB
TUTORIAL
248 Bytes
VERSION
8 Bytes
bowtie2
19.8 kB
bowtie2-align-l
1.5 MB
bowtie2-align-l-debug
4.2 MB
bowtie2-align-s
1.5 MB
bowtie2-align-s-debug
4.2 MB
bowtie2-build
2.8 kB
bowtie2-build-l
756.3 kB
bowtie2-build-l-debug
1.8 MB
bowtie2-build-s
752.0 kB
bowtie2-build-s-debug
1.8 MB
bowtie2-inspect
2.8 kB
bowtie2-inspect-l
412.1 kB
bowtie2-inspect-l-debug
971.0 kB
bowtie2-inspect-s
408.2 kB
bowtie2-inspect-s-debug
966.3 kB
doc
README
151 Bytes
manual.html
133.6 kB
style.css
6.7 kB
example
index
lambda_virus.1.bt2
4.2 MB
lambda_virus.2.bt2
1.5 kB
lambda_virus.3.bt2
17 Bytes
lambda_virus.4.bt2
12.1 kB
lambda_virus.rev.1.bt2
4.2 MB
lambda_virus.rev.2.bt2
1.5 kB
reads
combined_reads.bam
4.8 MB
longreads.fq
4.2 MB
reads_1.fq
2.3 MB
reads_2.fq
2.3 MB
simulate.pl
9.3 kB
reference
lambda_virus.fa
49.3 kB
scripts
bowtie2-hbb.sh
1.5 kB
convert_quals.pl
3.4 kB
gen_2b_occ_lookup.pl
3.0 kB
gen_occ_lookup.pl
6.7 kB
gen_solqual_lookup.pl
2.1 kB
infer_fraglen.pl
4.1 kB
make_a_thaliana_tair.sh
1.2 kB
make_b_taurus_UMD3.sh
1.5 kB
make_c_elegans.sh
1.1 kB
make_canFam2.sh
1.3 kB
make_d_melanogaster.sh
1.3 kB
make_e_coli.sh
1.1 kB
make_h_sapiens_ncbi36.sh
2.5 kB
make_h_sapiens_ncbi37.sh
3.5 kB
make_hg18.sh
2.2 kB
make_hg19.sh
3.1 kB
make_m_musculus_ncbi37.sh
1.6 kB
make_mm10.sh
2.6 kB
make_mm9.sh
1.9 kB
make_rn4.sh
2.0 kB
make_s_cerevisiae.sh
1.1 kB
README.txt
748 Bytes
SMART_BED_MERGE
Merge_Beds.sh
1.2 kB
README.txt
2.2 kB
STARRSEQ_MUTAGENESIS_ALIGNMENT
MPRA_FASTQ_to_Counts.sh
2.3 kB
README.txt
2.3 kB