平滑 numpy/pandas 中的一系列加权值

Question

我有一个 pandas 测量值和相应权重的 DataFrame：

df = pd.DataFrame({'x': np.random.randn(1000), 'w': np.random.rand(1000)})

我想在采用元素方式时平滑测量值 (x) 权重 (w) 考虑在内。这与滑动 window 的权重无关，我也想申请（例如三角形 window，或更漂亮的东西）。因此，要计算每个 window 中的平滑值，该函数不仅应通过 window 函数（例如三角形），而且还应通过中的相应元素对 x 的切片元素进行加权w.

据我所知，pd.rolling_apply 不会这样做，因为它适用于分别在 x 和 w 上给出函数。同样，pd.rolling_window 也不考虑源 DataFrame 的元素权重；加权 window（例如 'triangle'）可以由用户定义，但预先固定。

这是我的慢速实现：

def rolling_weighted_triangle(x, w, window_size):
    """Smooth with triangle window, also using per-element weights."""
    # Simplify slicing
    wing = window_size // 2

    # Pad both arrays with mirror-image values at edges
    xp = np.r_[x[wing-1::-1], x, x[:-wing-1:-1]]
    wp = np.r_[w[wing-1::-1], w, w[:-wing-1:-1]]

    # Generate a (triangular) window of weights to slide
    incr = 1. / (wing + 1)
    ramp = np.arange(incr, 1, incr)
    triangle = np.r_[ramp, 1.0, ramp[::-1]]

    # Apply both sets of weights over each window
    slices = (slice(i - wing, i + wing + 1) for i in xrange(wing, len(x) + wing))
    out = (np.average(xp[slc], weights=triangle * wp[slc]) for slc in slices)
    return np.fromiter(out, x.dtype)

如何使用 numpy/scipy/pandas 加快速度？

数据帧已经可以占用 RAM 的重要部分（10k 到 200M 行），例如预先分配 window-weights-per-element 的二维数组太多了。我试图尽量减少临时数组的使用，也许使用 np.lib.stride_tricks.as_strided 和 np.apply_along_axis 或 np.convolve，但还没有找到任何可以完全复制上述内容的东西。

这是统一 window 的等价物，而不是三角形（使用）——接近但不完全：

def get_sliding_window(a, width):
    """Sliding window over a 2D array.

    Source: 
    """
    # NB: a = df.values or np.vstack([x, y]).T
    s0, s1 = a.strides
    m, n = a.shape
    return as_strided(a,
                     shape=(m-width+1, width, n),
                     strides=(s0, s0, s1))


def rolling_weighted_average(x, w, window_size):
    """Rolling weighted average with a uniform 'boxcar' window."""
    wing = window_size // 2
    window_size = 2 * wing + 1
    xp = np.r_[x[wing-1::-1], x, x[:-wing-1:-1]]
    wp = np.r_[w[wing-1::-1], w, w[:-wing-1:-1]]
    x_w = np.vstack([xp, wp]).T
    wins = get_sliding_window(x_w, window_size)
    # TODO - apply triangle window weights - multiply over wins[,:,1]?
    result = np.average(wins[:,:,0], axis=1, weights=wins[:,:,1])
    return result

Answer 1

你可以在那里简单地使用卷积，就像这样 -

def rolling_weighted_triangle_conv(x, w, window_size):
    """Smooth with triangle window, also using per-element weights."""
    # Simplify slicing
    wing = window_size // 2

    # Pad both arrays with mirror-image values at edges
    xp = np.concatenate(( x[wing-1::-1], x, x[:-wing-1:-1] ))
    wp = np.concatenate(( w[wing-1::-1], w, w[:-wing-1:-1] ))

    # Generate a (triangular) window of weights to slide
    incr = 1. / (wing + 1)
    ramp = np.arange(incr, 1, incr)
    triangle = np.r_[ramp, 1.0, ramp[::-1]]

    D = np.convolve(wp*xp, triangle)[window_size-1:-window_size+1]
    N = np.convolve(wp, triangle)[window_size-1:-window_size+1]    
    return D/N

运行时测试

In [265]: x = np.random.randn(1000)
     ...: w = np.random.rand(1000)
     ...: WSZ = 7
     ...: 

In [266]: out1 = rolling_weighted_triangle(x, w, window_size=WSZ)
     ...: out2 = rolling_weighted_triangle_conv(x, w, window_size=WSZ)
     ...: print(np.allclose(out1, out2))
     ...: 
True

In [267]: %timeit rolling_weighted_triangle(x, w, window_size=WSZ)
     ...: %timeit rolling_weighted_triangle_conv(x, w, window_size=WSZ)
     ...: 
100 loops, best of 3: 10.2 ms per loop
10000 loops, best of 3: 32.9 µs per loop

300x+ 那里加速了！

平滑 numpy/pandas 中的一系列加权值

Smoothing a series of weighted values in numpy/pandas

python

signal-processing

numpy

scipy

pandas