20210126

Contents

1. Working directories
2. SRR downloading for Wang Jiao
1. 2.1. Ref
3. Download FASTA from the site as below to build human reference genome
1. 3.1. Ref
4. Index (Content) in Hexo page
5. cat (output on a screen) a document without uncompressing in Mac OSX
6. ICTV
7. HEV Record from README.md
8. Comments in Rmd document

Content function introduced

Working directories

i=/media/ht/ht_5T/Work/Projects/Other_Projects/Coronavirus_Project/Ref/NYT
pcmanfm -n ${i}; cd ${i} # Why_the_Covid_Vaccine_Rollout_Is_Not_Enough_to_Curb_Infections-The_New_York_Times.pdf
#
i=/media/ht/ht_5T/Work/Projects/NFE/B95-8/Summary/B95-8_Nrf2_20210126_1651.pptx
setsid wpp ${i}
#
i=/media/ht/ht_5T/Work/Projects/NFE/Summary/NFE2_Sum_Large.pptx
setsid wpp ${i} # Keap1 WB updated
#
i=/media/ht/ht_5T/Stored_Softs/Cross_Platform_Softs/QQ
pcmanfm -n ${i}; cd ${i} # Debian pack of QQ downloaded
#
i=/media/ht/ht_5T_5/HLA-G/SRA/Summary/HLA-G_Note_20201226_2140.docx
setsid wps ${i} # p62 draft, content added # Info addition needed
# OneDrive uploaded

SRR downloading for Wang Jiao

i=/media/ht/ht_5T_5/HLA-G/SRA/Endometrial_Cancer
pcmanfm -n ${i}; cd ${i} 
#
prefetch SRR11296716 SRR11296723 SRR11296732 SRR11296751 SRR11296770 SRR11296787 SRR11296800 SRR11296802 SRR11296823 SRR11296836 SRR11296844 SRR11296845 SRR11296847 SRR11296869 SRR11296879 SRR11296882

Ref

Download SRA sequences from Entrez search results

Download FASTA from the site as below to build human reference genome

1	axel ftp://ftp.ncbi.nlm.nih.gov/refseq/H_sapiens/annotation/GRCh38_latest/refseq_identifiers/GRCh38_latest_genomic.fna.gz

Human Genome Resources at NCBI - NCBI

Ref

Index (Content) in Hexo page

`cat` (output on a screen) a document without uncompressing in Mac OSX

1 2	zcat < file gunzip -c file

ICTV

HEV Record from README.md

README.md, /media/ht/ht_5T/Work/Funding/2017_重大专项/Management/Administration/09_02_63_HEV/README.md

**HEV**

Unassigned  Hepeviridae     Orthohepevirus  Orthohepevirus A

Keyword='Orthohepevirus A'
ete3 ncbiquery --search ${Keyword} --info

# Taxid Sci.Name    Rank    Named Lineage   Taxid Lineage
1678141 Orthohepevirus  genus   root,Viruses,ssRNA viruses,ssRNA positive-strand viruses, no DNA stage,Hepeviridae,Orthohepevirus   1,10239,439488,35278,291484,1678141

Comments in Rmd document

Ctrl + Shift + C
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