Comments (2)
lucyintheskyzzz
commented on June 15, 2024
Hi,
This ended up working:
sealionfeces <- readDNAStringSet(filepath="H:/ONRdolphinsealionpooled/sealionfecespooled/canu/medaka/consensus.fasta", + format="fasta")
sealionfeces DNAStringSet object of length 544: width seq names [1] 2097 GTACTTCGTTCAGTTACGTATTGCTAAGGTTAAAAGGTTACAC...AACCTTTTAACCTTAGCAATACGTAACTGAACGAAGTACAAC tig00000561 [2] 1359 TGTGCTTCGTTCAGTTACGTATTGCTAAGGTTAAAACCAAGAC...TCTTGGTTTTAACCTTAGCAATACGTAACTGAACGAAGCACA tig00000101 [3] 1043 TTGCTTCGTTCGGTTACGTATTGCTAAGGTTAAAAGGTTACAC...TTGTGTAACCTTTTAACCTTAGCAATACGTAACTGAACGAAG tig00000348 [4] 1150 TTGTACTTCGTTCAGTTACGTATTGCTAAGGTTAAAAGGTTAC...GTGTAACCTTTTAACCTTAGCAATACGTAACTGAACGAAGTA tig00000123 [5] 1211 GTTGTACTTCGTTCAGTTACGTATTGCTAAGGTTAAAAGGTTA...AACCTTTTAACCTTAGCAATACGTAACTGAACGAAGTACAAC tig00000470 ... ... ... [540] 1438 TACTTCGTTCAGTTACGTATTGCTAAGGTTAAAAGGTTACACA...TAACCTTTTAACCTTAGCAATACGTAACTGAACGAAGTACAA tig00000160 [541] 1410 GTTGTACTTCGTTCAGTTACGTATTGCTAAGGTTAAAAGGTTA...TAACCTTTTAACCTTAGCAATACGTAACTGAACGAAGTACAA tig00000117 [542] 1355 TGTACTTCGTTCAGTTACGTATTGCTAAGGTTAAAAGGTTACA...AGGGTTTGTGTAACCTTTTAACCTTAGCAATACGTAACTGAA tig00000351 [543] 1529 TGTACTTCGTTCAGTTACGTATTGCTAAGGTTAAAAGGTTACA...AACCTTTTAACCTTAGCAATACGTAACTGAACGAAGTACAAC tig00000277 [544] 1540 GTTGTACTTCGTTCAGTTACGTATTGCTAAGGTTAAAAGGTTA...AACCTTTTAACCTTAGCAATACGTAACTGAACGAAGTACAAC tig00000436
--
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HajkD
commented on June 15, 2024
Hi,
The function system.file(...) refers to the example file path in the package. It is not intended to be copied for your own path.
I hope this helps.
from metablastr.
Related Issues (12)
- blast_best_reciprocal_hit nucleotide-protein comparison task error HOT 1
- Error: Internal error in `dict_hash_with()`: Dictionary is full.
- How can I load sequences from a CSV file and do the massive Blast search locally?
- Package release request HOT 2
- blast_nt for nucleotide against NCBI database HOT 3
- additional functionality when extracting random sequences HOT 5
- Feature Request: exclude sequences with Ns
- Feature Request: extract the same regions from multiple samples
- function blast_protein_to_protein with argument is.subject.db = TRUE doesn't work with nr database HOT 5
- Feature request : add taxon id for each blast hit HOT 3
- Reg: Reciprocal hits from already run blast outcomes HOT 5
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