Moderator: shenwei356
shenwei356 ♦ 5.5k
- Reputation:
- 5,540
- Status:
- Trusted
- Location:
- China
- Website:
- http://shenwei.me/
- Twitter:
- shenwei356
- Scholar ID:
- Google Scholar Page
- Last seen:
- an hour ago
- Joined:
- 8 years, 6 months ago
- Email:
- s*********@gmail.com
Posts by shenwei356
<prev
• 579 results •
page 1 of 58 •
next >
-1
votes
3
answers
106
views
3
answers
... Hmm... I've tested with your sample data, everything is OK.
You may check the input data (check extra whitespace or tab at front/end of IDs, file encoding, even manually copy and search in the file with text editor.), and try with additional options, e.g., switch on `-i` to ignore cases. ...
written 2 days ago by
shenwei356 ♦ 5.5k
0
votes
3
answers
106
views
3
answers
... Option `-w` should be added to `grep` for exact matching. ...
written 2 days ago by
shenwei356 ♦ 5.5k
2
votes
3
answers
106
views
3
answers
... Referring to the [usage](https://bioinf.shenwei.me/seqkit/usage/#grep), you should not switch on `-n` , just use `seqkit grep -f id.txt seqs.fa`.
-n, --by-name match by full name instead of just id
-i, --ignore-case ignore case
-r, --use-regexp pattern ...
written 3 days ago by
shenwei356 ♦ 5.5k
1
vote
2
answers
70
views
2
answers
... https://github.com/kblin/ncbi-genome-download or https://github.com/pirovc/genome_updater ...
written 6 days ago by
shenwei356 ♦ 5.5k
0
votes
1
answer
89
views
1
answers
Comment:
C: NCBI Viral Genomes Resource
... Just google with "NCBI Viral Genomes Resource", check the first result. ...
written 6 days ago by
shenwei356 ♦ 5.5k
0
votes
0
answers
61
views
0
answers
... > I have a lot of inputs (around 7000) that i concatenante in .txt file like this
Seems the one-line format is not the original format, one-name-per-line could be the easiest and most convenient for downstream processing.
And 7000 is not a small number, you can try [taxonkit name2taxid](https: ...
written 6 days ago by
shenwei356 ♦ 5.5k
0
votes
0
answers
61
views
0
answers
... You may [change the encoding of the text file](https://support.microsoft.com/en-us/office/choose-text-encoding-when-you-open-and-save-files-60d59c21-88b5-4006-831c-d536d42fd861) as `UTF8`. ...
written 7 days ago by
shenwei356 ♦ 5.5k
0
votes
0
answers
61
views
0
answers
... You should show some lines of input .txt file at the very beginning. How may lines in it?
df = read.csv("t.txt", quote="'", header=FALSE)
species = as.vector(t(df[1, ])) # 1 means the first row.
If there are more than one lines, use loop. ...
written 7 days ago by
shenwei356 ♦ 5.5k
0
votes
0
answers
61
views
0
answers
... df = read.csv("C:/Users/pdoinel/Desktop/species.txt", header=FALSE)
species <- as.vector(df[[1]])
data<-getId(species, taxaNames) ...
written 7 days ago by
shenwei356 ♦ 5.5k
0
votes
0
answers
61
views
0
answers
... specieds <- as.list(read.csv("list.txt", header=FALSE))
data<-getId(specieds, taxaNames)
...
written 7 days ago by
shenwei356 ♦ 5.5k
Latest awards to shenwei356
Scholar
2 days ago,
created an answer that has been accepted.
For A: looking for 16S RNA sequence consensus
Teacher
7 days ago,
created an answer with at least 3 up-votes.
For A: How to get RNAfold (structure) output in text format
Teacher
8 days ago,
created an answer with at least 3 up-votes.
For A: How to get RNAfold (structure) output in text format
Popular Question
10 days ago,
created a question with more than 1,000 views.
For csvtk - a cross-platform, efficient, practical and pretty CSV/TSV toolkit
Appreciated
13 days ago,
created a post with more than 5 votes.
For C: Inserting delim between numbers and strings in bash
Great Question
3 months ago,
created a question with more than 5,000 views.
For SeqKit: a cross-platform and ultrafast toolkit for FASTA/Q file manipulation in Golang
Appreciated
5 months ago,
created a post with more than 5 votes.
For C: Inserting delim between numbers and strings in bash
Popular Question
5 months ago,
created a question with more than 1,000 views.
For SeqKit: a cross-platform and ultrafast toolkit for FASTA/Q file manipulation in Golang
Teacher
6 months ago,
created an answer with at least 3 up-votes.
For A: How to get RNAfold (structure) output in text format
Scholar
6 months ago,
created an answer that has been accepted.
For A: looking for 16S RNA sequence consensus
Popular Question
7 months ago,
created a question with more than 1,000 views.
For SeqKit: a cross-platform and ultrafast toolkit for FASTA/Q file manipulation in Golang
Appreciated
7 months ago,
created a post with more than 5 votes.
For C: Inserting delim between numbers and strings in bash
Teacher
8 months ago,
created an answer with at least 3 up-votes.
For A: How to get RNAfold (structure) output in text format
Scholar
8 months ago,
created an answer that has been accepted.
For A: looking for 16S RNA sequence consensus
Appreciated
8 months ago,
created a post with more than 5 votes.
For C: Inserting delim between numbers and strings in bash
Teacher
8 months ago,
created an answer with at least 3 up-votes.
For A: How to get RNAfold (structure) output in text format
Scholar
8 months ago,
created an answer that has been accepted.
For A: looking for 16S RNA sequence consensus
Scholar
10 months ago,
created an answer that has been accepted.
For A: looking for 16S RNA sequence consensus
Teacher
11 months ago,
created an answer with at least 3 up-votes.
For A: How to get RNAfold (structure) output in text format
Teacher
12 months ago,
created an answer with at least 3 up-votes.
For A: How to get RNAfold (structure) output in text format
Teacher
12 months ago,
created an answer with at least 3 up-votes.
For A: How to get RNAfold (structure) output in text format
Scholar
14 months ago,
created an answer that has been accepted.
For A: looking for 16S RNA sequence consensus
Popular Question
14 months ago,
created a question with more than 1,000 views.
For SeqKit: a cross-platform and ultrafast toolkit for FASTA/Q file manipulation in Golang
Good Answer
14 months ago,
created an answer that was upvoted at least 5 times.
For A: Bioinformatics software distribution
Appreciated
14 months ago,
created a post with more than 5 votes.
For C: Inserting delim between numbers and strings in bash
Use of this site constitutes acceptance of our User
Agreement
and Privacy
Policy.
Powered by Biostar
version 2.3.0
Traffic: 1349 users visited in the last hour