User: Toto26

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Toto2610
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1 month, 3 weeks ago
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Posts by Toto26

<prev • 59 results • page 1 of 6 • next >
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Comment: C: Parsing dataframe and sort a fasta file
... Hi think it is working, do you know how can I count how many record I have in a fasta file with biopython? ...
written 9 days ago by Toto2610
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Comment: C: Parsing dataframe and sort a fasta file
... I wrote an answer to show you what I tried ...
written 9 days ago by Toto2610
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Answer: A: Parsing dataframe and sort a fasta file
... Hi tried this : for a, b in zip(seq1_id,seq2_id): if a in record_dict_sp1_aa: print(">",record_dict_sp1_aa[a].id,file=output_aa_sp1,sep="") print(record_dict_sp1_aa[a].seq,file=output_aa_sp1) print(">",record_dict_sp2_aa[b].id,file=output_aa_sp2,sep="" ...
written 9 days ago by Toto2610
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Comment: C: Parsing dataframe and sort a fasta file
... Hi, thank you, I think it will be usefull for other peoples but I actually need to code it with python because all my pipeline is coded with it.. ...
written 9 days ago by Toto2610
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Parsing dataframe and sort a fasta file
... Hi all, I need some help. In fact in the contexte of my work I have a dataframe of seq names paired together, in each row there is one column for the seq_id of the sp1 and one fore the seq _idof the sp2. In another hand I have two fasta files which contain all these sequences (same seq Id) + the seq ...
fasta python pandas written 9 days ago by Toto2610 • updated 9 days ago by Bastien Hervé1.1k
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Merge my dataframe depending on a fasta SeqId order
... Hi all, I actually have two fasta file candidates_aa_0042.fasta and candidates_aa_0035.fasta and two dataframe Best_blast_candidate_hit_0042.csv and Best_blast_candidate_hit_0035.csv Here is the exemple containt of them : qseqid sseqid pident length mismatch gapopen qstart qend sstart send e ...
python merge pandas written 11 days ago by Toto2610
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Counting number of reads and bases fastaQ with python
... Hi all, does someone know a way to count a many base are in a fastaQ file and how many read as well? (R1 and R2 fastaQ files from illumina). And if it is possible to do it with python? Thanks for you help :) ...
fastaq python biopython written 12 days ago by Toto2610 • updated 11 days ago by drkennetz0
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Comment: C: Get summary of augustus ouput (gff)
... OK I'll try this thank you :) ...
written 12 days ago by Toto2610
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Get summary of augustus ouput (gff)
... Hi all, I made 4 augustus run for all my genomes assembly and get 4 gff files. Does someone know a programme which plot the results in sumarry, or only creat a summary table with number of gene predicted, number of complet ones (start + stop) etc? ? Thank you :) ...
augustus gff written 12 days ago by Toto2610 • updated 12 days ago by goodez30
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Comment: C: No output nr file after running makedb
... This command does not work, when I use it with a file name that exists, nothing appends (I'm in a virtual env - server) ...
written 13 days ago by Toto2610

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Rising Star 13 days ago, created 50 posts within first three months of joining.

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