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数据与复现
BI
bio-sequence-statistics
维护者 FreedomIntelligence · 最近更新 2026年4月1日
bio-sequence-statistics：Calculate sequence statistics (N50，length distribution，GC content，summary reports) ，使用 Biopython。 适合在analyzing sequence 数据集s，generating QC reports，或 comparing assemblies时使用。
原始来源
FreedomIntelligence/OpenClaw-Medical-Skills
https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-sequence-statistics
- 维护者
- FreedomIntelligence
- 许可
- MIT
- 最近更新
- 2026年4月1日
技能摘要
来自 SKILL.md 的关键信息
核心说明
- Python：SeqIO.parse()，gc_fraction() (BioPython)。
- Calculate N50 、 other assembly statistics" → Compute sequence count，length distribution，N50/L50，GC content，、 nucleotide composition ，用于 FASTA 数据集s. Python：SeqIO.parse()，gc_fraction() (BioPython)。
- Calculate comprehensive statistics ，用于 sequence 数据集s ，使用 Biopython。
- bin_size = 100 bins = [(l // bin_size) * bin_size ，用于 l in lengths] histogram = Counter(bins)。
- 用于 length_bin in sorted(histogram.keys())：count = histogram[length_bin] print(f'{length_bin}-{length_bin + bin_size}：{count}')。
原始文档
SKILL.md 摘录
Length Histogram Data
from collections import Counter
lengths = [len(r.seq) for r in SeqIO.parse('sequences.fasta', 'fasta')]
## Comprehensive Summary Report
**Goal:** Generate a complete QC summary (counts, lengths, N50, GC) for any FASTA file.
**Approach:** Load all records, compute length and GC arrays, derive N50/L50 from cumulative sorted lengths, and package into a dictionary.
**Reference (BioPython 1.83+):**
## Compare Multiple Assemblies
**Goal:** Generate a side-by-side comparison table of key metrics across multiple assembly files.
**Approach:** Run `sequence_summary` on each file and format results into an aligned table.
**Reference (BioPython 1.83+):**
适用场景
- 适合在analyzing sequence 数据集s，generating QC reports，或 comparing assemblies时使用。
不适用场景
- Do not rely on this catalog entry alone ，用于 installation 或 maintenance details。
上游相关技能
- read-sequences - Parse sequences for statistics calculation
- batch-processing - Calculate stats across multiple files
- fastq-quality - Quality score statistics for FASTQ files
- sequence-manipulation/sequence-properties - Per-sequence GC content and properties
- alignment-files - samtools stats/flagstat for alignment statistics
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