معرفی شرکت ها
tnseq-transit_3.2.7-1_amd64.deb
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مشاهده بیشتر
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مشاهده بیشتر
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مشاهده بیشتر
تبلیغات ما
مشتریان به طور فزاینده ای آنلاین هستند. تبلیغات می تواند به آنها کمک کند تا کسب و کار شما را پیدا کنند.
مشاهده بیشتر
تبلیغات ما
مشتریان به طور فزاینده ای آنلاین هستند. تبلیغات می تواند به آنها کمک کند تا کسب و کار شما را پیدا کنند.
مشاهده بیشترتوضیحات
statistical calculations of essentiality of genes or genomic regions
| ویژگی | مقدار |
|---|---|
| سیستم عامل | Linux |
| توزیع | Debian Bookworm-12 |
| مخزن | Debian main amd64 |
| نام بسته | tnseq-transit |
| نام فایل بسته | tnseq-transit_3.2.7-1_amd64.deb |
| نسخه بسته | 3.2.7 |
| انتشار بسته | 1 |
| معماری بسته | amd64 |
| نگهدارنده | Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org> |
| تاریخ ساخت | - |
| هاست سازنده | - |
| نوع بسته | .deb |
| آدرس صفحه اصلی | http://saclab.tamu.edu/essentiality/transit/ |
| مجوز | - |
| حجم دانلود | 9029204 |
| حجم نصب | 77374 |
This is a software that can be used to analyze Tn-Seq datasets. It
includes various statistical calculations of essentiality of genes or
genomic regions (including conditional essentiality between 2
conditions). These methods were developed and tested as a collaboration
between the Sassetti lab (UMass) and the Ioerger lab (Texas A&M)
.
TRANSIT is capable of analyzing TnSeq libraries constructed with Himar1
or Tn5 datasets.
.
TRANSIT assumes you have already done pre-processing of raw sequencing
files (.fastq) and extracted read counts into a .wig formatted file.
The .wig file should contain the counts at all sites where an insertion
could take place (including sites with no reads). For Himar1 datasets
this is all TA sites in the genome. For Tn5 datasets this would be all
nucleotides in the genome.
جایگزین ها
| بسته | نسخه | معماری | مخزن |
|---|---|---|---|
| tnseq-transit_3.2.7-1_arm64.deb | 3.2.7 | arm64 | Debian main |
| tnseq-transit_3.2.7-1_armel.deb | 3.2.7 | armel | Debian main |
| tnseq-transit_3.2.7-1_armhf.deb | 3.2.7 | armhf | Debian main |
| tnseq-transit_3.2.7-1_i386.deb | 3.2.7 | i386 | Debian main |
| tnseq-transit_3.2.7-1_mips64el.deb | 3.2.7 | mips64el | Debian main |
| tnseq-transit_3.2.7-1_mipsel.deb | 3.2.7 | mipsel | Debian main |
| tnseq-transit_3.2.7-1_ppc64el.deb | 3.2.7 | ppc64el | Debian main |
| tnseq-transit_3.2.7-1_s390x.deb | 3.2.7 | s390x | Debian main |
نیازمندی
| مقدار | نام |
|---|---|
| - | python3-matplotlib |
| - | python3-numpy |
| - | python3-pil |
| - | python3-pkg-resources |
| - | python3-pubsub |
| - | python3-scipy |
| - | python3-sklearn |
| - | python3-statsmodels |
| - | python3-wxgtk4.0 |
| - | python3:any |
| - | bwa |
نحوه نصب
نصب پکیج deb tnseq-transit:
sudo apt-get install tnseq-transit_3.2.7-1_amd64.deb
فایل ها
| مسیرها |
|---|
| ./usr/bin/transit |
| ./usr/bin/transit-tpp |
| ./usr/lib/python3/dist-packages/pytpp/__init__.py |
| ./usr/lib/python3/dist-packages/pytpp/__main__.py |
| ./usr/lib/python3/dist-packages/pytpp/tpp_gui.py |
| ./usr/lib/python3/dist-packages/pytpp/tpp_tools.py |
| ./usr/lib/python3/dist-packages/pytransit/__init__.py |
| ./usr/lib/python3/dist-packages/pytransit/__main__.py |
| ./usr/lib/python3/dist-packages/pytransit/analysis/__init__.py |
| ./usr/lib/python3/dist-packages/pytransit/analysis/anova.py |
| ./usr/lib/python3/dist-packages/pytransit/analysis/base.py |
| ./usr/lib/python3/dist-packages/pytransit/analysis/binomial.py |
| ./usr/lib/python3/dist-packages/pytransit/analysis/corrplot.py |
| ./usr/lib/python3/dist-packages/pytransit/analysis/example.py |
| ./usr/lib/python3/dist-packages/pytransit/analysis/gi.py |
| ./usr/lib/python3/dist-packages/pytransit/analysis/griffin.py |
| ./usr/lib/python3/dist-packages/pytransit/analysis/gumbel.py |
| ./usr/lib/python3/dist-packages/pytransit/analysis/heatmap.py |
| ./usr/lib/python3/dist-packages/pytransit/analysis/hmm.py |
| ./usr/lib/python3/dist-packages/pytransit/analysis/norm.py |
| ./usr/lib/python3/dist-packages/pytransit/analysis/normalize.py |
| ./usr/lib/python3/dist-packages/pytransit/analysis/pathway_enrichment.py |
| ./usr/lib/python3/dist-packages/pytransit/analysis/rankproduct.py |
| ./usr/lib/python3/dist-packages/pytransit/analysis/resampling.py |
| ./usr/lib/python3/dist-packages/pytransit/analysis/tn5gaps.py |
| ./usr/lib/python3/dist-packages/pytransit/analysis/tnseq_stats.py |
| ./usr/lib/python3/dist-packages/pytransit/analysis/ttnfitness.py |
| ./usr/lib/python3/dist-packages/pytransit/analysis/utest.py |
| ./usr/lib/python3/dist-packages/pytransit/analysis/zinb.py |
| ./usr/lib/python3/dist-packages/pytransit/convert/__init__.py |
| ./usr/lib/python3/dist-packages/pytransit/convert/base.py |
| ./usr/lib/python3/dist-packages/pytransit/convert/gff_to_prot_table.py |
| ./usr/lib/python3/dist-packages/pytransit/data/COG_roles.dat |
| ./usr/lib/python3/dist-packages/pytransit/data/GO_associated_Rvs-3-11-18.txt |
| ./usr/lib/python3/dist-packages/pytransit/data/GO_associated_Rvs.csv |
| ./usr/lib/python3/dist-packages/pytransit/data/GO_term_names.dat |
| ./usr/lib/python3/dist-packages/pytransit/data/GO_terms_for_each_Rv.obo-3-11-18.txt |
| ./usr/lib/python3/dist-packages/pytransit/data/H37Rv.sanger_associated_RVS.csv |
| ./usr/lib/python3/dist-packages/pytransit/data/H37Rv_COG_roles.dat |
| ./usr/lib/python3/dist-packages/pytransit/data/H37Rv_GO_terms.txt |
| ./usr/lib/python3/dist-packages/pytransit/data/H37Rv_sanger_roles.dat |
| ./usr/lib/python3/dist-packages/pytransit/data/README.md |
| ./usr/lib/python3/dist-packages/pytransit/data/cholesterol_H37Rv_merged.wig |
| ./usr/lib/python3/dist-packages/pytransit/data/cholesterol_H37Rv_rep1.wig |
| ./usr/lib/python3/dist-packages/pytransit/data/cholesterol_H37Rv_rep2.wig |
| ./usr/lib/python3/dist-packages/pytransit/data/cholesterol_H37Rv_rep3.wig |
| ./usr/lib/python3/dist-packages/pytransit/data/cholesterol_glycerol_combined.dat |
| ./usr/lib/python3/dist-packages/pytransit/data/gene_ontology.1_2.3-11-18.obo |
| ./usr/lib/python3/dist-packages/pytransit/data/glycerol_H37Rv_merged.wig |
| ./usr/lib/python3/dist-packages/pytransit/data/glycerol_H37Rv_rep1.wig |
| ... and 48 more |