bsmith89/smith2018paper-v1.1.zip
bsmith89-smith2018paper-f05bc03
.gitattributes
82 Bytes
.gitignore
415 Bytes
Makefile
28.9 kB
README.md
3.9 kB
doc
bibliography.bib
182.3 kB
preprint.tex
87.5 kB
static
acarbose_structure.svg
43.3 kB
concept-diagram.pdf
204.5 kB
template
bmc-mathphys.bst
61.1 kB
bmcart-nofigbox.cls
55.7 kB
matplotlibrc
13 Bytes
meta
extraction.tsv
10.6 kB
hplc
calibration_config.tsv
529 Bytes
calibration_group.tsv
24.5 kB
injection.tsv
28.8 kB
known.tsv
2.0 kB
molecule.tsv
398 Bytes
standard.tsv
2.0 kB
misc
bacteroidales.silva.seed.meta.tsv
20.1 kB
bacteroidales_family_designation.tsv
847 Bytes
bacteroidales_ref.silva.antipattern.list
238 Bytes
bacteroidales_ref.silva.pattern.list
4.6 kB
custom_ref_seqs.fn
1.6 kB
mouse.tsv
7.6 kB
rrs
analysis_group.tsv
2.1 kB
library.tsv
8.2 kB
primer.tsv
145 Bytes
spike.fn
2.9 kB
sample.tsv
7.1 kB
spike.tsv
115 Bytes
nb
bacteroidales_phylo.ipynb
14.3 kB
jupyter_notebook_config.py
135 Bytes
main_results.ipynb
58.4 kB
muribac_uniq.ipynb
12.8 kB
otu_details.ipynb
21.8 kB
profile_default
ipython_kernel_config.py
246 Bytes
survival_analysis.ipynb
20.5 kB
raw
hplc
2015-12-19.RI.lcs_export.txt
155.7 kB
2015-12-20.RI.lcs_export.txt
136.8 kB
2015-12-30_a.RI.lcs_export.txt
193.3 kB
2016-01-08_c.RI.lcs_export.txt
158.3 kB
2016-01-24.RI.lcs_export.txt
138.9 kB
2016-02-26_a.RI.lcs_export.txt
100.0 kB
2016-02-26_b.RI.lcs_export.txt
115.3 kB
2016-05-08.RI.lcs_export.txt
340.5 kB
2016-05-15.RI.lcs_export.txt
321.7 kB
2016-05-18.RI.lcs_export.txt
110.2 kB
2016-06-28.RI.lcs_export.txt
377.5 kB
proto
2016-01-08_b.RI.lcs_export.txt
223.1 kB
2016-01-26.RI.lcs_export.txt
319.8 kB
2016-03-10.RI.lcs_export.txt
106.4 kB
2016-05-11.RI.lcs_export.txt
425.4 kB
requirements.pip
338 Bytes
schema_metadata.sql
9.8 kB
schema_results.sql
9.5 kB
scripts
__init__.py
0 Bytes
calibrate_hplc.py
2.3 kB
concat_tables.py
568 Bytes
generate_rrs_makefile.py
1.2 kB
get_groups.sh
337 Bytes
get_ordered_leaves.py
279 Bytes
import_db.py
1.9 kB
ipynb_output_filter.py
435 Bytes
lib
__init__.py
0 Bytes
data.py
5.9 kB
plotting.py
9.3 kB
stats.py
1.5 kB
otus_to_names_file.py
673 Bytes
parse_lcs_export.py
3.2 kB
parse_names_as_taxonomy.py
626 Bytes
parse_otu_taxonomy.py
1.5 kB
pbs
interactive.pbs
144 Bytes
make.all.pbs
1.3 kB
pivot_count_table.py
703 Bytes
plot_hplc_calibration.py
4.1 kB
qc_hplc.py
1.5 kB
squeeze_alignment.py
993 Bytes
stack_shared.py
780 Bytes