User: archana.bioinfo87
archana.bioinfo87 • 170
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Posts by archana.bioinfo87
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... Dear,
Check your input fasta file and also try to add DB name. What is your fasta file size? ...
written 15 hours ago by
archana.bioinfo87 • 170
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... Hi,
If your file is not too big than you can try this command. Here your query sequence will act as a motif so it preserve "Ns"
seqkit.exe locate --degenerate --ignore-case --pattern-file your_query.fa file_conatin_all_seq.fasta
You can modify the command according to your requirement.
H ...
written 24 days ago by
archana.bioinfo87 • 170
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... You can also make two directory for R1 and R2
mkdir R1
mkdir R2
mv *R1_001.fastq.gz R1
mv *R2_001.fastq.gz R2
cd R1
ls | cat -n | while read n f; do mv "$f" "$n"_$f; done
cd ../R2
ls | cat -n | while read n f; do mv "$f" "$n"_$f; done
cd ..
for i in $(seq 1 8 ...
written 28 days ago by
archana.bioinfo87 • 170
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... What tool or software you used for pan-genome analysis? What type of data you have used? If you can explain a little bit more about your work than it would be easy to answer your question. ...
written 28 days ago by
archana.bioinfo87 • 170
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... Thanks. I am going to try this as well. ...
written 5 weeks ago by
archana.bioinfo87 • 170
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... Thanks for your time and effort. I really appreciate it.
...
written 5 weeks ago by
archana.bioinfo87 • 170
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... Hi,
I am trying to get 1-21nt, 2-22nt, 3-23nt etc till the end of sequences. For example, if I have sequences of 51 nt in length then I will get the 30 fragments with 21 nt in each fragment. I tried this script whcih looks to work fine but only for first 2 lines only.
fasta <- read.csv( ...
written 5 weeks ago by
archana.bioinfo87 • 170
• updated
5 weeks ago by
JC ♦ 9.1k
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Comment:
C: remove NaNs from ExpressionSet
... Hi,
try this code maybe it will work for you
ExpressionSet[ExpressionSet == NaN] <- 0 ...
written 3 months ago by
archana.bioinfo87 • 170
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... Hi,
I am trying to find a way to calculate the essentiality score for circular RNA. What method I should use to calculate the score.
Any help or suggestion is much appreciated. ...
written 3 months ago by
archana.bioinfo87 • 170
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... you can do one more thing sort the data with respect to gene_id and
for next in $(cut –d" “ -f1 sorted_data.csv | sort -u); do grep -w -m 3 "$next" sorted_data.csv ; done
You can also modify the command according to your file columns. ...
written 4 months ago by
archana.bioinfo87 • 170
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