| /dports/biology/bbmap/bbmap/pytools/lib/ |
| H A D | readqc_utils.py | 234 def write_unique_20_mers(fastq, log): argument
497 def illumina_read_gc(fastq, log): argument
604 def write_avg_base_quality_stats(fastq, log): argument
654 def illumina_count_q_score(fastq, log): argument
759 def illumina_find_common_motifs(fastq, log): argument
820 def illumina_run_dedupe(fastq, log): argument
899 def illumina_detect_read_contam3(fastq, firstBp, log): argument
1753 def insert_size_analysis(fastq, log): argument
1908 def gc_divergence_analysis(fastq, bIsPaired, srcDir, log): argument
2128 def gen_average_base_position_quality_plot(fastq, bIsPaired, log): argument
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| H A D | rqc_fastq.py | 35 def check_fastq_format(fastq, log=None): argument
96 def read_length_from_file(fastq, log=None, ssize=10000): argument
176 def get_working_read_length(fastq, log): argument
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| H A D | common.py | 476 def get_read_count_fastq(fastq, log = None): argument
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| /dports/biology/bbmap/bbmap/pytools/ |
| H A D | readqc.py | 56 def do_fast_subsample_fastq_sequences(fastq, skipSubsampling, log): argument
112 def do_write_unique_20_mers(fastq, totalReadCount, log): argument
168 def do_illumina_read_gc(fastq, log): argument
207 def do_read_quality_stats(fastq, log): argument
374 def do_write_base_quality_stats(fastq, log): argument
421 def do_illumina_count_q_score(fastq, log): argument
472 def do_illumina_find_common_motifs(fastq, log): argument
533 def do_illumina_detect_read_contam(fastq, bpToCut, log): argument
905 def do_insert_size_analysis(fastq, log): argument
1425 fastq = None # full path to input fastq.gz variable
[all …]
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| H A D | filter.py | 335 def post_process(fastq, outDir, filteredFastq, status, log): argument
621 def read_qc(odir, fastq, status): argument
816 fastq = None ## full path to input fastq variable
884 fastq = options.fastq variable
913 fastq = os.path.realpath(fastq) variable
914 fastq = fastq.replace("/chos", "") if fastq.startswith("/chos") else fastq variable
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| /dports/www/chromium-legacy/chromium-88.0.4324.182/third_party/devtools-frontend/src/node_modules/fastq/ |
| H A D | index.d.ts | 1 declare function fastq<C, T = any, R = any>(context: C, worker: fastq.worker<C, T, R>, concurrency:… function
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| H A D | README.md | 1 # fastq chapter
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| /dports/biology/bamutil/bamUtil-1.0.15/libStatGen/ |
| H A D | Makefile | 19 bam fastq glf vcf: general target
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| /dports/biology/hisat2/hisat2-2.2.1/evaluation/tests/genotype_genome/ |
| H A D | hisatgenotype_prev.py | 35 fastq, argument
98 fastq, argument
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| /dports/biology/biolibc/biolibc-0.2.1/ |
| H A D | fastx.h | 16 bl_fastq_t fastq; member
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| /dports/biology/py-ont-fast5-api/ont_fast5_api-release_4.0.0/ont_fast5_api/analysis_tools/ |
| H A D | basecall_2d.py | 56 def get_called_sequence(self, section=None, fastq=False): argument
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| H A D | basecall_1d.py | 36 def get_called_sequence(self, section, fastq=False): argument
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| /dports/biology/sra-tools/sra-tools-2.11.0/ngs/ngs-python/examples/ |
| H A D | NGS_FastQ.py | 42 def fastq( run, start : int, count : int ) : function
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| /dports/biology/ncbi-vdb/ngs-2.11.0/ngs-python/examples/ |
| H A D | NGS_FastQ.py | 42 def fastq( run, start : int, count : int ) : function
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| /dports/biology/ngs-sdk/ngs-2.11.1/ngs-python/examples/ |
| H A D | NGS_FastQ.py | 42 def fastq( run, start : int, count : int ) : function
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| /dports/www/chromium-legacy/chromium-88.0.4324.182/third_party/devtools-frontend/src/node_modules/@nodelib/fs.walk/ |
| H A D | package.json | 4 "fastq": "^1.6.0" string
|
| /dports/textproc/kibana7/kibana-7.16.2-darwin-x86_64/node_modules/@nodelib/fs.walk/ |
| H A D | package.json | 32 "fastq": "^1.6.0" string
|
| /dports/textproc/opensearch-dashboards/opensearch-dashboards-1.2.0-linux-x64/node_modules/@nodelib/fs.walk/ |
| H A D | package.json | 32 "fastq": "^1.6.0" string
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| /dports/biology/stacks/stacks-2.4/src/ |
| H A D | constants.h | 144 fastq, gzfastq, enumerator
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| /dports/biology/pbbam/pbbam-0.18.0/include/pbbam/internal/ |
| H A D | QualityValues.inl | 64 inline QualityValues QualityValues::FromFastq(const std::string& fastq)
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| /dports/biology/diamond/diamond-2.0.13/src/util/ |
| H A D | seq_file_format.cpp | 112 static const FASTQ_format fastq; in guess_format() local
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| /dports/biology/iolib/io_lib-io_lib-1-14-10/progs/ |
| H A D | srf_extract_hash.c | 125 int fastq = 0, calibrated = 0, i; in main() local
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| /dports/biology/bbmap/bbmap/current/pacbio/ |
| H A D | PartitionReads.java | 214 public static boolean fastq=false; field in PartitionReads
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| /dports/biology/sra-tools/sra-tools-2.11.0/tools/fuse/ |
| H A D | formats.h | 76 } fastq; member
123 } fastq; member
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| /dports/biology/abyss/abyss-2.3.1/Konnector/ |
| H A D | konnector.cc | 200 bool fastq = false; variable
698 bool fastq = true) in outputRead()
771 FastqRecord fastq; in connectPair() local
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