StackOverflow Questions for Tag: biopython

vhd

Reputation: 17

URLError: <urlopen error [Errno -3] Temporary failure in name resolution> while using Biopython

pythonurldnsgoogle-colaboratorybiopython

Score: 0

Answers: 0

Darwin

Reputation: 2057

TypeError: 'Seq' object does not support item assignment

pythonbioinformaticsbiopython

Score: 1

Answers: 3

Lc_decg

Reputation: 189

Error 'FastaIterator' object has no attribute 'records' in Biopython 1.85

pythonbiopythonfasta

Score: 0

Answers: 1

Wasim Aftab

Reputation: 808

Download all pubmed central article ids that have a keyword appearing in their titles/abstracts and also falling between two dates

pythonbiopython

Score: 1

Answers: 1

Jennifer Espinoza Maldonado

Reputation: 21

Using Biopython and accessing the NCBI databases, how should my search term variable look like?

pythonbiopythonncbi

Score: 2

Answers: 0

Noamiz

Reputation: 11

BioPython Entrez article limit

biopythonncbi

Score: 1

Answers: 2

Denis Sechin

Reputation: 11

Why Entrez esearch doesn't provide all abstracts from PubMed?

pythonbiopythonpubmed

Score: 1

Answers: 0

Allan K

Reputation: 497

Authentication plugin 'mysql_native_password' cannot be loaded: /usr/lib/mysql/plugin/mysql_native_password.so: cannot open shared object file

bioinformaticsbiopythonlibmysqlclient

Score: 0

Answers: 1

darkwing

Reputation: 160

multiprocessing when iterating over a DNA sequence alignment in Jupiter

pythonjupyter-notebookmultiprocessingbioinformaticsbiopython

Score: 2

Answers: 0

Maria

Reputation: 33

How to get UniProt accession from amino acids sequence?

pythonbioinformaticsbiopython

Score: 0

Answers: 1

HungryMolecule

Reputation: 337

Biopython: return chain but with the new chain ID already

pythonbioinformaticsbiopythonpdb

Score: 0

Answers: 1

Alejandra Diaz

Reputation: 11

Making a loop for Fastq Quality control in Biopyton

bioinformaticsbiopythonfastq

Score: 1

Answers: 1

tktk

Reputation: 11754

Using Bio.SeqIO to write single-line FASTA

pythonpython-2.7bioinformaticsbiopythonfasta

Score: 5

Answers: 4

user1784467

Reputation: 475

Using Biopython (Python) to extract sequence from FASTA file

pythonpython-2.7bioinformaticsbiopythonfasta

Score: 9

Answers: 2

Hari

Reputation: 1

Biopython Entrez module EFetch throws HTTP error 400 : Bad Request

pythonbioinformaticsbiopythonncbipubmed-api

Score: 0

Answers: 0

M. Iyer

Reputation: 125

Using np.asarray with Biopython get_residues: KeyError

pythonnumpypython-2.7bioinformaticsbiopython

Score: 3

Answers: 1

y.a

Reputation: 113

How to superimpose and calculate the RMSD for a large number of mmCIF(or PDB) files containing DIFFERENT proteins

pythonbiopythonpdb-filessuperimpose

Score: 0

Answers: 1

biohacker

Reputation: 152

What is the easiest way in Biopython to duplicate or "clone" a chain in a PDB file?

bioinformaticsbiopythonprotein-database

Score: 1

Answers: 3

nannarito

Reputation: 13

Replacing PDB atom names with Biopython

bioinformaticsbiopython

Score: 1

Answers: 3

Chaoran

Reputation: 11

BioPython - qblast() timeout every time, running from python shell

biopythonblastncbi

Score: 0

Answers: 1

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StackOverflow Questions for Tag: biopython

URLError: &lt;urlopen error [Errno -3] Temporary failure in name resolution&gt; while using Biopython

TypeError: &#39;Seq&#39; object does not support item assignment

Error &#39;FastaIterator&#39; object has no attribute &#39;records&#39; in Biopython 1.85

Download all pubmed central article ids that have a keyword appearing in their titles/abstracts and also falling between two dates

Using Biopython and accessing the NCBI databases, how should my search term variable look like?

BioPython Entrez article limit

Why Entrez esearch doesn&#39;t provide all abstracts from PubMed?

Authentication plugin &#39;mysql_native_password&#39; cannot be loaded: /usr/lib/mysql/plugin/mysql_native_password.so: cannot open shared object file

multiprocessing when iterating over a DNA sequence alignment in Jupiter

How to get UniProt accession from amino acids sequence?

Biopython: return chain but with the new chain ID already

Making a loop for Fastq Quality control in Biopyton

Using Bio.SeqIO to write single-line FASTA

Using Biopython (Python) to extract sequence from FASTA file

Biopython Entrez module EFetch throws HTTP error 400 : Bad Request

Using np.asarray with Biopython get_residues: KeyError

How to superimpose and calculate the RMSD for a large number of mmCIF(or PDB) files containing DIFFERENT proteins

What is the easiest way in Biopython to duplicate or &quot;clone&quot; a chain in a PDB file?

Replacing PDB atom names with Biopython

BioPython - qblast() timeout every time, running from python shell

URLError: <urlopen error [Errno -3] Temporary failure in name resolution> while using Biopython

TypeError: 'Seq' object does not support item assignment

Error 'FastaIterator' object has no attribute 'records' in Biopython 1.85

Why Entrez esearch doesn't provide all abstracts from PubMed?

Authentication plugin 'mysql_native_password' cannot be loaded: /usr/lib/mysql/plugin/mysql_native_password.so: cannot open shared object file

What is the easiest way in Biopython to duplicate or "clone" a chain in a PDB file?