User: akansha.gitanjali

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Posts by akansha.gitanjali

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Extract text between delimiters and use it to rename the same file
... I have file that looks like >sp|Q5T4S7|UBR4_HUMAN E3 ubiquitin-protein ligase UBR4 OS=Homo sapiens OX=9606 GN=UBR4 PE=1 SV=1 362 S AGC AQQVRTGSTSSKEDD 2.108 0.386 364 S AGC QVRTGSTSSKEDDYE 0.556 0.386 555 S AGC LQRQRKGSMSSDASA 4.466 0.386 625 S AGC ESSPRVKSPSKQ ...
linux shell bash written 1 day ago by akansha.gitanjali10 • updated 23 hours ago by RamRS25k
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Comment: C: How to separate a big file into smaller ones using linux commands?
... I have another question: I have file that looks like >sp|Q5T4S7|UBR4_HUMAN E3 ubiquitin-protein ligase UBR4 OS=Homo sapiens OX=9606 GN=UBR4 PE=1 SV=1 362 S AGC AQQVRTGSTSSKEDD 2.108 0.386 364 S AGC QVRTGSTSSKEDDYE 0.556 0.386 555 S AGC LQRQRKGSMSSDASA 4.466 0.386 ...
written 1 day ago by akansha.gitanjali10 • updated 1 day ago by genomax75k
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Comment: C: How to separate a big file into smaller ones using linux commands?
... thanks you! `awk '/^>/ {n++}{print > "output" n ".txt"}' ` worked fine. ...
written 1 day ago by akansha.gitanjali10
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Comment: C: How to separate a big file into smaller ones using linux commands?
... They are copies of the first 13 files ...
written 8 days ago by akansha.gitanjali10
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Comment: C: How to separate a big file into smaller ones using linux commands?
... `awk '/ // / {n++}{print > "output" n ".txt"}' ` works but is creating double the number of files. I have 13 '//' but after splitting the number of new files created are 26. ...
written 8 days ago by akansha.gitanjali10 • updated 8 days ago by genomax75k
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Comment: C: How to separate a big file into smaller ones using linux commands?
... if you can explain what the different / mean that will be very helpful. I am new to linux. ...
written 9 days ago by akansha.gitanjali10
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How to separate a big file into smaller ones using linux commands?
... I have a file that looks like below. I want to separate out the chunks from first '//' to the next '//' and create separate files using linux commands. How can I do that? Position Code Kinase Peptide Score Cutoff //sp|P62754|RS6_MOUSE 40S ribosomal protein S6 OS=Mus musculus O ...
linux bash written 9 days ago by akansha.gitanjali10 • updated 9 days ago by Pierre Lindenbaum124k
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Comment: C: Retrieve multiple FASTA from UniProt using R
... Yes I can download whole proteome from Example Retrieval Uniprot. But I want to use different uniprot identifiers like .................. ids <- c("P62754", "Q8K094", "Q64337") I am using R 3.6.1 which doesn't support BioConductor. What to do? > install.packages("bioconductor ...
written 24 days ago by akansha.gitanjali10 • updated 23 days ago by genomax75k
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Retrieve multiple FASTA from UniProt using R
... I have a huge list of UniProt protein accession numbers and I need to retrieve the FASTA sequences from UniProt website. Is there any R script for doing that? I know I can do it from UniProt website but this will be used for further developing script for downstream mass spec analysis. ...
fasta R uniprot written 24 days ago by akansha.gitanjali10 • updated 23 days ago by h.mon28k
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What does my error message (Autodock vina ligand error) mean ?
... I have a problem with autodock vina. I made a ligand on pubchem and converted it to pdb. When I tried uploading it to Autodock tools it is giving a error (pasted the error message below). Can you detect what is the problem all about? It will be very helpful if anyone can help me with this. Py ...
software error written 5 months ago by akansha.gitanjali10 • updated 5 months ago by pq0ky0

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