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1
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Different output fields from efetch
python efetch sequence written 3 days ago by Medhat ♦ 8.0k • updated 3 days ago by Pierre Lindenbaum ♦ 115k
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3
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2.1k
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3
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Entrez direct E-utilities - "efetch" command to retrieve CDS with protein accessions does not work
entrez direct e-utilities cds efetch retrieve written 2.2 years ago by al-ash • 60 • updated 7 weeks ago by h.mon ♦ 21k
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137
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Which tool to use to get all citations of a pmid paper?
entrez eutils efetch written 10 weeks ago by Saad Khan • 310 • updated 10 weeks ago by h.mon ♦ 21k
2
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1
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166
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1
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Strand not working in biopython efetch
efetch biopython strand written 11 weeks ago by tim.ivanov.92 • 10 • updated 11 weeks ago by jrj.healey ♦ 9.1k
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5 follow
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efetch error LWP::Protocol::https not installed
efetch written 14 months ago by traviata • 0 • updated 11 weeks ago by Jinguo • 10
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1
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335
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1
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Getting taxid from accession number
taxid efetch taxonomy genbank eutils written 7 months ago by auninsaw • 10
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3
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946
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3
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Retrieve GFF3 file from ncbi
gff3 ncbi efetch written 10 months ago by john • 70 • updated 8 months ago by ucpete • 20
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3
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423
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3
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Cannot get efetch to download genome - what is wrong?
genome fasta efetch entrez written 8 months ago by BioBing • 100 • updated 8 months ago by h.mon ♦ 21k
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329
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1
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To get the name of the strains by searching assembly genome number GCF_
ncbi python efetch written 10 months ago by horsedog • 30 • updated 10 months ago by Joseph Hughes • 2.6k
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Fetching NCBI gene symbols from NCBI protein ids or GI identifiers
ncbi gene efetch entrez written 13 months ago by Vijay Lakhujani ♦ 3.4k • updated 13 months ago by Puli Chandramouli Reddy • 150
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1
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710
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How to download all sequences of a list of proteins for a particular organism
entrez direct efetch esearch written 13 months ago by traviata • 0 • updated 13 months ago by Kevin Blighe ♦ 33k
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638
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web efetch Json out put which is not a real json
python efetch json biopython pubmed written 15 months ago by Lilizine • 0
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1
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428
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1
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Nested loops write in xml
python loop biopython efetch xml written 15 months ago by Lilizine • 0
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703
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NCBI Entrez - efetch from PMC returns only abstract
efetch entrez pmc written 15 months ago by chaniart • 0 • updated 15 months ago by Jean-Karim Heriche ♦ 17k
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11 follow
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Download NCBI genomes using taxonomy id (taxid)
ncbi python efetch biopython written 20 months ago by David • 120 • updated 16 months ago by pedrorodrigues • 10
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0
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746
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0
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Entrez progammaticly: Direct efetch or epost + efetch
epost efetch entrez written 16 months ago by guedes.aureliano • 0
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1
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770
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1
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URL for NCBI Efetch + XML with full annotation table
ncbi xml efetch eutils annotation written 17 months ago by Pierre Lindenbaum ♦ 115k • updated 17 months ago by genomax ♦ 59k
2
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1
answer
575
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1
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Mistakes in a bash script for adding taxid for nt database
taxid efetch nt database shell bash written 17 months ago by wyc661217 • 10 • updated 17 months ago by Istvan Albert ♦♦ 78k
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1
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731
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1
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Transfer GI to taxID by efetch in a loop
software error taxid efetch gi written 18 months ago by wyc661217 • 10
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1
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781
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1
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Using efetch(biopython) to get the fasta file of an mRNA, as well as the exon locations
python efetch biopython entrez written 18 months ago by Jacob • 10 • updated 18 months ago by Ben • 50
7
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1
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610
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Extract Bibliographic Reference from GEO dataset using EFetch?
geo ncbi efetch written 19 months ago by Tom • 20 • updated 19 months ago by Santosh Anand • 4.3k
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3.0k
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Difference between NCBI Entrez formats (e.g., xml, docsum) for efetch
ncbi edirect efetch entrez command-line written 4.6 years ago by paulparsons • 130 • updated 20 months ago by DCGenomics • 310
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Getting DNA sequences by ncbi eutils for a specific assembly e.g.: hg19, hg38, GRCh37.p13 or GRCh38.p6?
ncbi eutils efetch dna sequences written 23 months ago by burcakotlu • 40
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How can we download all TSA and WGS from NCBI Trace by taxon programmatically?
ncbi assembly trace efetch eutils written 2.1 years ago by Michael Dondrup ♦ 45k
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How to retrieve any and all NCBI/GenBank accession numbers from a Taxonomy ID?
ncbi accession number efetch taxid bioinformatics written 2.1 years ago by yarmda • 0
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1
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611
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1
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How to pass multiple seq_start and seq_stop statements to NCBI efetch
ncbi efetch sequence entrez written 2.2 years ago by massa.kassa.sc3na • 0
1
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How to get correct Taxonomy UID from NCBI Taxonomy using Entrez E-utilities efetch?
ncbi efetch entrez biopython e-utilities written 2.4 years ago by JV • 380 • updated 2.4 years ago by piet • 1.6k
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1
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1.0k
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1
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NCBI feature table sequence extraction
ncbi efetch programming written 2.5 years ago by Prasad • 1.5k • updated 2.5 years ago by Sej Modha ♦ 3.9k
1
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1
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961
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1
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Fetching multiple FASTA from NCBI
ncbi efetch written 2.5 years ago by mikael.lenz.strube • 40 • updated 2.5 years ago by piet • 1.6k
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0
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1.3k
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Find an existing nucleotide sequence for a specific protein sequence through NCBI eutils
efetch sequence esearch elink eutils written 3.0 years ago by Jenez • 510
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