User: genomes_and_MGEs

Reputation:
10
Status:
New User
Location:
Last seen:
1 month, 1 week ago
Joined:
2 years, 2 months ago
Email:
j***********@hotmail.com

Posts by genomes_and_MGEs

<prev • 51 results • page 1 of 6 • next >
0
votes
0
answers
74
views
0
answers
(Closed) Attribute number every time a given character shows
... Hey, I have a text file with 1_Ab 2_Cd 3_Ab 4_Cd 5_Ef 6_Ef And would like to attribute number every time a given character shows up (Ab, Cd, Ef, etc.), so that the attributed numbers appear next to the text, like this 1_Ab 1 2_Cd 2 3_Ab 1 4_Cd 2 5_E ...
sequence written 6 weeks ago by genomes_and_MGEs10
1
vote
1
answer
125
views
1
answer
Filter rows below a given threshold
... Hey everyone, I have a numeric matrix like this one 1 4 0.439453125 1 5 0.03662109375 1 6 0.49609375 1 9 0.4384765625 1 14 0.55322265625 1 18 1 I would like to remove all rows with a threshold <0.3 b ...
sequence written 6 weeks ago by genomes_and_MGEs10 • updated 6 weeks ago by Alex Reynolds31k
12
votes
4
answers
205
views
7 follow
4
answers
Converting to decimal values
... Hi everyone, I have a table like this A B 2.9711e-01 6.8662e-10 2/2048 A C 2.3343e-03 0.0000e+00 1861/2048 A D 2.9711e-01 6.8666e-10 2/2048 A E 2.9711e-01 6.8658e-10 2/2048 I would like to convert column 5 into the decimal value, such as A B 2.9711e-01 6.8662e-10 0,000976 ...
sequence written 7 weeks ago by genomes_and_MGEs10 • updated 7 weeks ago by h.mon32k
1
vote
1
answer
113
views
1
answer
Convert coverage values to number of occurrence
... Hi everyone, I have a summary of reports like this #FILE NUM_FOUND KPHS_23120 abaR astA file1.tab 1 . 100.00;99.86;99.86;100.00 . file2.tab 2 . . . file3.tab 18 . . 98.29;98.29;98.29 The values represent the coverage, and for example for file1.tab, the abaR gene is present in 4 co ...
gene sequence written 7 weeks ago by genomes_and_MGEs10 • updated 7 weeks ago by Pierre Lindenbaum133k
2
votes
1
answer
153
views
1
answer
Only copy multifasta files from one directory to another
... Hey guys, I have a directory will a lot of fasta files, some single and some multi-fasta. Is there a way to copy only the multi-fasta files (i. e., those files that have more than one >) to another directory? Thanks! ...
assembly sequence written 3 months ago by genomes_and_MGEs10 • updated 3 months ago by Joe18k
5
votes
2
answers
209
views
2
answers
Removing text after last underscore on given column
... Hey guys, I have a tab-delimited file like this NZ_CP007546.1_En_asburiae4561905 434 17636 NZ_CP007546.1_En_asburiae4561905 85823 93173 NZ_CP007546.1_En_asburiae4561905 178912 203202 NZ_CP007546.1_En_asburiae4561905 313008 317041 ... I want to ...
sequence written 4 months ago by genomes_and_MGEs10 • updated 4 months ago by JC12k
1
vote
1
answer
150
views
1
answer
Extracting genomic regions based on coordinates in a text file
... Hey everyone, I have identified several regions of interest, using genbank files as input. This tool only outputs the start and stop position of these regions, but doesn't provide the option to extract the regions. Could you please let me know how to do this? I have a output text file like this: ...
sequence written 4 months ago by genomes_and_MGEs10 • updated 4 months ago by Pierre Lindenbaum133k
0
votes
0
answers
223
views
0
answers
Comment: C: Append fasta header to corresponding fasta filename
... I'm no expert in this, but I wrote this for F in *.fna ; do N=$(awk -F '>|_' '/^>/ {print $4}' $F) ; echo mv -v $F $N_$F ; done I understand it should be something similar to this, but I'm making some mistakes. Could you help me out? ...
written 4 months ago by genomes_and_MGEs10 • updated 4 months ago by _r_am32k
1
vote
0
answers
223
views
0
answers
Append fasta header to corresponding fasta filename
... Hey everyone, When you donwload a given assembly from Refseq NCBI, the filename with be for example GCF_006351845.1_ASM635184v1_genomic.fna and the corresponding fasta header >NZ_CP040904.1 Enterococcus faecium strain N56454 chromosome, complete genome After some formatting, all my fasta he ...
sequence written 4 months ago by genomes_and_MGEs10 • updated 4 months ago by cpad011214k
0
votes
1
answer
383
views
1
answers
Comment: C: Extract protein files from nucleotide accession numbers
... Thanks for the reply. Your solution works well, but it outputs tons of proteins with no link to the chromosome. I would like to link the extracted proteins to the chromosome. Any solution? ...
written 9 months ago by genomes_and_MGEs10

Latest awards to genomes_and_MGEs

Supporter 7 weeks ago, voted at least 25 times.
Popular Question 3 months ago, created a question with more than 1,000 views. For Rename several fasta-headers
Popular Question 4 months ago, created a question with more than 1,000 views. For Kill nohup bash process
Popular Question 4 months ago, created a question with more than 1,000 views. For Outputting strain name on prokka annotation
Popular Question 17 months ago, created a question with more than 1,000 views. For Kill nohup bash process

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 2222 users visited in the last hour
_