Moderator: shenwei356

gravatar for shenwei356
shenwei3565.5k
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Location:
China
Website:
http://shenwei.me/
Twitter:
shenwei356
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3 hours ago
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8 years, 6 months ago
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Posts by shenwei356

<prev • 579 results • page 2 of 58 • next >
3
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Answer: A: add nucleotide in the begining of fasta sequences
... [`seqkit mutate`](http://bioinf.shenwei.me/seqkit/usage/#mutate) can edit FASTA sequence (point mutation, insertion, deletion) . Please use [v0.14.0rc1](https://github.com/shenwei356/seqkit/releases/tag/v0.14.0rc1) or later version which fix a bug for insersion `seqkit mutate -i` supports inserting ...
written 8 days ago by shenwei3565.5k
0
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1
answer
88
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1
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Comment: C: From accession ID to phylum taxid
... The bug is fixed. Use this patch [v0.6.1rc1](https://github.com/shenwei356/taxonkit/releases/tag/v0.6.1rc1) ...
written 8 days ago by shenwei3565.5k
0
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1
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1
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Comment: C: How to download all the bacteria genomes from NCBI?
... Right, the tool is great! ...
written 9 days ago by shenwei3565.5k
0
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1
answer
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1
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Comment: C: How to download all the bacteria genomes from NCBI?
... http://blog.shenwei.me/manipulation-on-ncbi-refseq-bacterial-assembly-summary/ ...
written 9 days ago by shenwei3565.5k
3
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1
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88
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1
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Answer: A: From accession ID to phylum taxid
... Some species indeed have no phylum taxon level, so you can not retrieve the phylum taxid. e.g., echo 314101 \ | taxonkit lineage \ | taxonkit reformat \ | csvtk -H -t cut -f 1,3 \ | csvtk -H -t sep -f 2 -s ';' -R \ | csvtk add-header -t -n taxid,kindom,ph ...
written 9 days ago by shenwei3565.5k
0
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6
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1.1k
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Comment: C: Rust or C++, what to learn after Go for high-performance bioinformatics tools?
... C/C++/Rust core + Python is the perfect combination! ...
written 13 days ago by shenwei3565.5k
1
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6
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1.1k
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6
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Comment: C: Rust or C++, what to learn after Go for high-performance bioinformatics tools?
... Thank you for such comprehensive and valuable comment! ...
written 13 days ago by shenwei3565.5k
0
votes
6
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1.1k
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6
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Comment: C: Rust or C++, what to learn after Go for high-performance bioinformatics tools?
... Cool packages. Thanks for sharing. ...
written 14 days ago by shenwei3565.5k
49
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6
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1.1k
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11 follow
6
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Forum: Rust or C++, what to learn after Go for high-performance bioinformatics tools?
... I write [Golang](https://golang.org/) code for 8 years. Golang is easy and fast to write high performance applications, and I can further adjust the performance with help of its great profiling tools. But it can't directly utilize SIMD instructions, so soon touches the performance ceiling, the last ...
bioinformatics forum library written 14 days ago by shenwei3565.5k • updated 7 days ago by werewxcvv0
1
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4
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147
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Answer: A: Cutting fasta file into chunks?
... We use [seqkit](https://github.com/shenwei356/seqkit/releases) to slide on sequences with 1kb window: seqkit sliding -s 1000 -W 1000 seqs.fa.gz -o out.fa.gz You can also adjust step size to make **interleaved** chunks in some scenarios, e.g., `-s 900 -W 1000` for 1kb fragments with 100bp ove ...
written 18 days ago by shenwei3565.5k

Latest awards to shenwei356

Scholar 2 days ago, created an answer that has been accepted. For A: looking for 16S RNA sequence consensus
Teacher 8 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 11 days ago, created a question with more than 1,000 views. For csvtk - a cross-platform, efficient, practical and pretty CSV/TSV toolkit
Appreciated 14 days ago, created a post with more than 5 votes. For C: Inserting delim between numbers and strings in bash
Appreciated 5 months ago, created a post with more than 5 votes. For C: Inserting delim between numbers and strings in bash
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
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
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

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