Awk:
GNU Awk 4.2.1, API: 2.0 (GNU MPFR 3.1.6-p2, GNU MP 6.2.0)
gtf2gff3.pl version 0.1
MAJIQ version 2.4.dev102+g2cae1507. Full Conda environment:
# Name Version Build Channel
_libgcc_mutex 0.1 conda_forge conda-forge
_openmp_mutex 4.5 2_kmp_llvm conda-forge
boltons 23.0.0 py311h06a4308_0
brotlipy 0.7.0 py311h5eee18b_1002
bzip2 1.0.8 h7b6447c_0
c-ares 1.19.0 h5eee18b_0
ca-certificates 2023.7.22 hbcca054_0 conda-forge
certifi 2023.7.22 pyhd8ed1ab_0 conda-forge
cffi 1.15.1 py311h5eee18b_3
charset-normalizer 2.0.4 pyhd3eb1b0_0
conda 23.5.2 py311h38be061_0 conda-forge
conda-content-trust 0.1.3 py311h06a4308_0
conda-libmamba-solver 23.7.0 pyhd8ed1ab_0 conda-forge
conda-package-handling 2.1.0 py311h06a4308_0
conda-package-streaming 0.8.0 py311h06a4308_0
cryptography 39.0.1 py311h9ce1e76_2
fmt 9.1.0 hdb19cb5_0
icu 58.2 he6710b0_3
idna 3.4 py311h06a4308_0
jsonpatch 1.32 pyhd3eb1b0_0
jsonpointer 2.1 pyhd3eb1b0_0
krb5 1.20.1 h143b758_1
ld_impl_linux-64 2.38 h1181459_1
libarchive 3.6.2 h6ac8c49_2
libcurl 8.2.1 h251f7ec_0
libedit 3.1.20221030 h5eee18b_0
libev 4.33 h7f8727e_1
libffi 3.4.4 h6a678d5_0
libgcc-ng 13.2.0 h807b86a_0 conda-forge
libmamba 1.5.0 h658169a_0 conda-forge
libmambapy 1.5.0 py311h527f279_0 conda-forge
libnghttp2 1.52.0 h2d74bed_1
libsolv 0.7.24 he621ea3_0
libssh2 1.10.0 hdbd6064_2
libstdcxx-ng 13.2.0 h7e041cc_0 conda-forge
libuuid 1.41.5 h5eee18b_0
libxml2 2.10.3 hcbfbd50_0
llvm-openmp 12.0.1 h4bd325d_1 conda-forge
lz4-c 1.9.4 h6a678d5_0
mamba 1.5.0 py311h3072747_0 conda-forge
ncurses 6.4 h6a678d5_0
openssl 3.1.2 hd590300_0 conda-forge
packaging 23.0 py311h06a4308_0
pcre2 10.42 hebb0a14_0
pip 23.1.2 py311h06a4308_0
pluggy 1.0.0 py311h06a4308_1
pybind11-abi 4 hd3eb1b0_1
pycosat 0.6.4 py311h5eee18b_0
pycparser 2.21 pyhd3eb1b0_0
pyopenssl 23.0.0 py311h06a4308_0
pysocks 1.7.1 py311h06a4308_0
python 3.11.4 h955ad1f_0
python_abi 3.11 2_cp311 conda-forge
readline 8.2 h5eee18b_0
reproc 14.2.4 h295c915_1
reproc-cpp 14.2.4 h295c915_1
requests 2.29.0 py311h06a4308_0
ruamel.yaml 0.17.21 py311h5eee18b_0
setuptools 67.8.0 py311h06a4308_0
six 1.16.0 pyhd3eb1b0_1
sqlite 3.41.2 h5eee18b_0
tk 8.6.12 h1ccaba5_0
toolz 0.12.0 py311h06a4308_0
tqdm 4.65.0 py311h92b7b1e_0
tzdata 2023c h04d1e81_0
urllib3 1.26.16 py311h06a4308_0
wheel 0.38.4 py311h06a4308_0
xz 5.4.2 h5eee18b_0
yaml-cpp 0.7.0 h295c915_1
zlib 1.2.13 h5eee18b_0
zstandard 0.19.0 py311h5eee18b_0
zstd 1.5.5 hc292b87_0
MAJIQ ran with additional HTSlib version 1.12.
R analysis (dpsi.R script), sessionInfo:
R version 4.4.0 (2024-04-24 ucrt)
Platform: x86_64-w64-mingw32/x64
Running under: Windows 11 x64 (build 22631)
Matrix products: default
locale:
[1] LC_COLLATE=English_United States.utf8 LC_CTYPE=English_United States.utf8
[3] LC_MONETARY=English_United States.utf8 LC_NUMERIC=C
[5] LC_TIME=English_United States.utf8
time zone: America/New_York
tzcode source: internal
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] wbData_0.9.2 lubridate_1.9.3 forcats_1.0.0 stringr_1.5.1 dplyr_1.1.4
[6] purrr_1.0.2 readr_2.1.5 tidyr_1.3.1 tibble_3.2.1 ggplot2_3.5.1
[11] tidyverse_2.0.0
loaded via a namespace (and not attached):
[1] eulerr_7.0.2 rappdirs_0.3.3 utf8_1.2.4 generics_0.1.3
[5] cengenDataSC_0.1.0 polylabelr_0.2.0 lattice_0.22-6 stringi_1.8.3
[9] hms_1.1.3 magrittr_2.0.3 RColorBrewer_1.1-3 grid_4.4.0
[13] timechange_0.3.0 Matrix_1.7-0 wormDatasets_0.2.0 ggrepel_0.9.5
[17] writexl_1.5.0 mgcv_1.9-1 fansi_1.0.6 scales_1.3.0
[21] RApiSerialize_0.1.2 cli_3.6.2 rlang_1.1.3 crayon_1.5.2
[25] polyclip_1.10-6 splines_4.4.0 bit64_4.0.5 munsell_0.5.1
[29] withr_3.0.0 tools_4.4.0 qs_0.26.1 parallel_4.4.0
[33] tzdb_0.4.0 colorspace_2.1-0 vctrs_0.6.5 printMat_0.1.0
[37] R6_2.5.1 matrixStats_1.3.0 lifecycle_1.0.4 stringfish_0.16.0
[41] bit_4.0.5 vroom_1.6.5 pkgconfig_2.0.3 RcppParallel_5.1.7
[45] pillar_1.9.0 gtable_0.3.5 glue_1.7.0 Rcpp_1.0.12
[49] tidyselect_1.2.1 rstudioapi_0.16.0 farver_2.1.1 nlme_3.1-164
[53] ggsci_3.0.3 labeling_0.4.3 pheatmap_1.0.12 compiler_4.4.0