Scripts developped over time
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00_deprecated
.gitignore
LICENSE
README.md
addusers.sh
argparse_example.py
blast_get_best_results.py
body.sh
compress_directories
datify.sh
delusers.sh
fasta_GC_disctibution_graph.py
fasta_class_and_parser.py
fasta_cluster_longest.py
fasta_count_kmers.py
fasta_digest.py
fasta_distribution.py
fasta_extract.py
fasta_extract_group.py
fasta_extract_max_length.py
fasta_extract_min_coverage.py
fasta_extract_min_length.py
fasta_extract_n_sequences.py
fasta_extract_name.py
fasta_extract_random_sequences.py
fasta_extract_scaffold_regions.py
fasta_extract_wo_indel.py
fasta_keep_first.py
fasta_longer_nb.py
fasta_max_len.py
fasta_mean_len.py
fasta_min_len.py
fasta_n50.py
fasta_number_sequences.py
fasta_qual_to_fastq.py
fasta_random.py
fasta_random_length.py
fasta_remove.py
fasta_remove_duplicates.py
fasta_remove_sequences_with_N.py
fasta_remove_start.py
fasta_rename_matepair.py
fasta_replace_short_reads.py
fasta_reservoir_sampling.py
fasta_reverse_comp.py
fasta_separate_tags.py
fasta_sort_sequences_by_name.py
fasta_split.py
fasta_split_long_sequences.py
fasta_split_n_nucleotides.py
fasta_split_scaffolds.py
fasta_to_fake_fastq.py
fasta_total_length.py
fasta_total_length.sh
fasta_unwrap.py
fasta_wrap.py
fastqCombinePairedEnd.py
fastq_correct.py
fastq_extract.py
fastq_min_length.py
fastq_min_max_length.py
fastq_remove.py
fastq_reservoir_sampling.py
fastq_rrbs_convert.py
fastq_split.py
fastq_to_fasta.py
fastq_to_trimmed_fasta.py
fastq_trim.py
fastqgz_reservoir_sampling.py
fastqgz_subsampling.py
files_rename.py
gmailsend.py
line_extract.py
line_remove.py
markers_extract_to_file.py
markers_extract_to_screen.py
number_add_zeros.py
number_pad_spaces.py
parse_dupes.py
plot
plot2
plot2lines
plotlines
print.sh
progress.sh
progress_bar.py
r0
r1
r2
resize_term.sh
scan
script_autobackup_example.sh
send_weekly_cleaning_reminder.sh
sequences.py
simulate_depth.py
spark
total
undatify.sh
update_my_bash_history.sh
wifi_fix.sh

README.md

About these scripts

This is a collection of scripts written over the years to solve specific problems. Some of them are well tested, others not so well. As they have been written over a long period of time, the style and quality will inevitably vary.

Use at your own risk

These programs are provided as is, without any implied garanty of usefulness but with the hope that they may be of help to some.

Licensing

Read the LICENSE file for information about the license affecting these files

Contacting the author

You can send comments to the author at:

eric dot normandeau dot qc at gmail dot com