sacha schutz

Hi, I don't understand what is wrong ... I have a fastq file with the following sequences. (My barcode is under bracket): ``` @MN00591:192:000H332YK:1:11102:20930:2477 1:N:0:1 GCCCCCAAAATCAGCGAAATGGGCGCCATTGGTGATGACACCAGGCATCAGAATAAATGTTGTCGGCGAGATATTTGTCGGTCCCAGACTTTCGCTGAACGGCCACGGAGATAGGGCTAGGAGTAACCAGAATGGAGAACGC [ATATCATTAACAGAG] GGTACGCTCATCAGAATTAACC + FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF...

Is there a way to load json vega ?

1

Is it possible to load a python object from the json vega grammar ?

Python 3 compatible

1

Some methods are not compatible with Python3. For exemple : ``` iu-merge-pairs ^ SyntaxError: Missing parentheses in call to 'print' ```

use filename as document id when importing dataset

2

Hi, I imported text data file into doccano for NER annotations. Filenames looks like "242424.txt". When importing, used ids for document was an autoincrement number. It would be better to...

I would like to use a custom keyboard shortcut . How Can I do that ?

Hi, Just to inform you, I m building a REST API on top of VariantTools and the GUI client to make vtools request across the web . ( local server...

Can I create a table in run time ? For instance, ask the user some columns description and and create appropriate table

===> PyVCF3 <<===

9

PYVCF3 is available here : https://pypi.org/project/PyVCF3/ As the project is not maintained anymore, but very used... I suggest to make a fork and rename the project as "PyVCF2" on pypi....

ValueError: could not convert string to float: 'NA'

5

I get the same error when parsing a vcf annotated with dbNSFP ( by snpSift ) I ran the following ```python reader = vcf.Reader(open("file.vcf")) for line in reader: print(line) ```...

Hi, I m trying to monitor progression when reading file... Something like this : total = os.path.getsize(filename) for record in vcf.Reader(open(filename)): progression = record.bytes_read / total * 100 print(progression) How...